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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgccctgtccaaccatacaattttagaatttcctagcgttacattaacttttaccacagccactcgcacatacactaaccttcaactaaaatatggtgtgttttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCTATTCCGAACCAGCAGATCATCGGGAAGCTTGAAAGGGCTCTTGGAACAA

Basic information

species Oryza sativa
transcript LOC_Os08g27850.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g27850.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM5G800112_T02 (Zea mays), 3'ss of exon 3
gtgccctgtccaaccatacaattttagaatttcctagcgttacattaacttttaccacagccactcgcacatacactaaccttcaactaaaatatggtgtgttttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCTATTCCGAACCAGCAGATCATCGGGAAGCTTGAAAGGGCTCTTGGAACAA
|| |   ||   | |||    ||| |||| |||  | |  ||   | |    || |     |  |         | ||| |    |  |  || |||||| | ||| |    |||||| ||||||||||| |||||||| |||||||| || ||||| || || || || ||||||||||||||  | ||||| || ||||| || ||||| |
gtacttggtggtatcattgggtttcagaacttc--aaccata-gctgagaagtagcttgatccttgtttggcctattaatca--gatgaggatgtggtgtttattgta----gATGATAAATGAGAAGCCACAGGTGATTCAGGAGTATGAATCAGGCAAGGCAATCCCCAACCAGCAGATCATTAGCAAGCTCGAGAGGGCCCTGGGAACCA

upper sequence: LOC_Os08g27850.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G101480_T01 (Zea mays), 3'ss of exon 3
gtgccctgtccaaccatacaattttagaatttcctagcgttacattaacttttaccacagccactcgcacatacactaaccttcaactaaaatatgg-tgtgttttgcaa-acagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCTATTCCGAACCAGCAGATCATCGGGAAGCTTGAAAGGGCTCTTGGAACAA
           ||   ||   | ||     ||      ||| |||| |    |   | ||   || |  | |    |  |||     | | ||  || | || | | ||   |||||||||||||||||||| ||||||||||||||||| |||||||| || || ||||| |||||||||||||| || ||||| || ||||| || ||||| |
----------aaagtctatgctgttg----ttgtagtagttccattgatagctggga-agtagcttgatccttggttggcctctttatgagatgaggatatggtgttcattgcagATGATCAATGAGAAGCCACAGGTGATCCAGGAGTATGAGTCAGGCAAGGCAATTCCCAACCAGCAGATCATTGGCAAGCTCGAGAGGGCCCTGGGAACGA

upper sequence: LOC_Os08g27850.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM5G800112_T01 (Zea mays), 3'ss of exon 3
gtgccctgtccaaccatacaattttagaatttcctagcgttacattaacttttaccacagccactcgcacatacactaaccttcaactaaaatatggtgtgttttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCTATTCCGAACCAGCAGATCATCGGGAAGCTTGAAAGGGCTCTTGGAACAA
|| |   ||   | |||    ||| |||| |||  | |  ||   | |    || |     |  |         | ||| |    |  |  || |||||| | ||| |    |||||| ||||||||||| |||||||| |||||||| || ||||| || || || || ||||||||||||||  | |                        
gtacttggtggtatcattgggtttcagaacttc--aaccata-gctgagaagtagcttgatccttgtttggcctattaatca--gATGAGGATGTGGTGTTTATTGTA----GATGATAAATGAGAAGCCACAGGTGATTCAGGAGTATGAATCAGGCAAGGCAATCCCCAACCAGCAGATCATTAGCA------------------------

upper sequence: LOC_Os08g27850.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GLYMA06G42890.1 (Glycine max), 3'ss of exon 3
gtgccctgtccaaccatacaattttagaatttcctagcgttacattaacttttaccacagccactcgcacatacactaaccttcaactaaaatatggtgtgttttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCTATTCCGAACCAGCAGATCATCGGGAAGCTTGAAAGGGCTCTTGGAACAA
                          | ||| |    ||| | |||| |  |  |   |    |      |     ||  | | | | |  || ||   |||  | |   ||| |||||||||||||||| || |||||||||||||| |||||||| || || ||||| ||||||||||| ||  | ||| | ||||| ||||||||| | |
--------------------------gtattgctcgtcgt-atattatcggtctctttattttccttattagtatttaggcattatcaatgatgtgcattgt--tacttgcagCTGATCAATGAGAAGCCTCAAGTGATCCAGGAGTATGAGTCAGGGAAGGCCATTCCAAACCAGCAGATAATTAGCAAGTTGGAAAGAGCTCTTGGAGCTA

upper sequence: LOC_Os08g27850.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GLYMA12G15410.1 (Glycine max), 3'ss of exon 3
-----gtgccctgtccaaccatacaattttagaatttcctagcgt-tacattaacttttaccacagccactcgcacatac---actaaccttcaactaaaat--atggtgtgttttgcaa---acagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCTATTCCGAACCAGCAGATCATCGGGAAGCTTGAAAGGGCTCTTGGAACAA
        | |  | || || |   || |    || |       | || ||  |  | ||  |  |        |  | |   | || |    |   |  ||  ||| |||| ||||  |    ||| |||||||| ||||||| || ||||| ||||||||||||||||| || || ||||  |||||||| || || || ||| | | ||  |  |||||  | |
gtattaccctcccttcagccgttttatatatatatatatatatatatatatatatatatatgatcgatctctttattttccttattagcagctaggcattatcaatgatgtgctttgttacttgcagCTGATCAATAAGAAGCCTCAAGTGATTCAGGAGTACGAGTCAGGGAAGGCCATTCTAAACCAGCATATAATTGGCAAGTTGGGAAAAGTCCTTGGGGCTA

upper sequence: LOC_Os08g27850.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GLYMA12G15420.1 (Glycine max), 3'ss of exon 3
gtgccctgtccaaccatacaattttagaatttcctagcgttacattaacttttaccacagccactcgcacatacactaaccttcaactaaaat--atggtgtgttttgcaa---acagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCTATTCCGAACCAGCAGATCATCGGGAAGCTTGAAAGGGCTCTTGGAACAA
       ||    |  |    | |    ||||  |     || ||||    |||      |   |         ||||   || |   |  ||  ||| ||||  |||  |    ||| |||||||||||||||| || ||||||||||||||||||||||| || || ||||| ||||||||||| || |||||| | ||||||||||||||| |||
-------gtattgctttcttctctgtagattttttttgaatatattattcattattg-gtctcttttttttcctactagtatttaggcatgatcaatgatgtgcattgttacttgcagCTGATCAATGAGAAGCCTCAAGTGATCCAGGAGTACGAGTCAGGGAAGGCCATTCCAAACCAGCAGATAATTGGGAAGTTGGAAAGGGCTCTTGGAGCAA

upper sequence: LOC_Os08g27850.2 (Oryza sativa), 3'ss of exon 3
lower sequence: GLYMA06G42900.1 (Glycine max), 3'ss of exon 3
-----gtgccctgtccaaccatacaattttagaatttcctagcgttacattaacttttaccacagccactcgcacatacactaaccttcaactaaaatatggtgtgttttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCTATTCCGAACCAGCAGATCATCGGGAAGCTTGAAAGGGCTCTTGGAACAA
        | |  | ||     |  |||||  ||| |   | || |   || | ||||   |    || |    |||  |  ||        | |  |    |||   |||||    | |||||||||||||||| || ||||||||||||||||||||||| || || ||||| ||||||||||| || || ||| | ||||| || |||||| | |
gtattactctcccttcagtagaattattttt-aatatatcatcgatctctttatttttcttattagcaattaggcat-tatcaa--------tgacgtgcattgttacttgca----gCTGATCAATGAGAAGCCTCAAGTGATCCAGGAGTACGAGTCAGGAAAGGCCATTCCAAACCAGCAGATAATTGGCAAGTTGGAAAGAGCCCTTGGAGCTA

upper sequence: LOC_Os08g27850.2 (Oryza sativa), 3'ss of exon 3
lower sequence: AT2G42680.1 (Arabidopsis thaliana), 3'ss of exon 3
gtgccctgtccaaccatacaattttagaatttcctagcgttacattaacttttaccacagccactcgcacatacactaaccttcaactaaaatatggtgtgttttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCTATTCCGAACCAGCAGATCATCGGGAAGCTTGAAAGGGCTCTTGGAACAA
                        || | | ||||    |     |  |  |||  |   || ||      || |||    |      ||| | |    |  |||      |||| |||||||||||||| || ||||| || ||||| ||||| || |||||||| || |||||||| ||| |    ||||| || || || |||||| | |
-----------------------gtatattatccttctctctatatgtcccttattattacc-ctattttgta-actcggttcatgacaaagtgtttgtttctttttgtgtagATCATCAATGAGAAGCCACAAGTGATTCAAGAGTATGAGTCTGGCAAAGCTATACCCAACCAGCAAATCCTTTCTAAGCTGGAGAGAGCGCTTGGAGCTA

upper sequence: LOC_Os08g27850.2 (Oryza sativa), 3'ss of exon 3
lower sequence: AT3G58680.1 (Arabidopsis thaliana), 3'ss of exon 3
gtgccctgtccaaccatacaattttagaatttcctagcgttacattaacttttaccacagccactcgcacatacactaaccttcaactaaaatatggtgtgttttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCTATTCCGAACCAGCAGATCATCGGGAAGCTTGAAAGGGCTCTTGGAACAA
                    | |||    ||||   |  |     |   | ||   || | |  |||    ||    ||  ||||  |   ||  | | || ||       || |||||||||||||||| || |||||||| || |||||||| || ||||| |||||||| || |||||| |    ||||| || ||||| |||||  | |
------------------gtactttcatttttctctgtatctttctctttctt-ttactgtctttcgtcagtaattgaa--ttca--ttgtatgggttttgattct---gtagCTGATCAATGAGAAGCCACAAGTGATCCAAGAATACGAGTCTGGGAAAGCAATTCCGAATCAACAGATCCTTTCAAAGCTGGAGAGGGCACTTGGTGCTA

upper sequence: LOC_Os08g27850.2 (Oryza sativa), 3'ss of exon 3
lower sequence: Vv19s0014g01260.t01 (Vitis vinifera), 3'ss of exon 3
gtgccctgtccaaccatacaattttagaatttcctagcgttacattaacttttaccacagccactcgcacatacactaaccttcaactaaaatatggtgtgttttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCTATTCCGAACCAGCAGATCATCGGGAAGCTTGAAAGGGCTCTTGGAACAA
                           |  |  |   | ||   |     | |    |      ||| || ||  ||||  |     | |    || | | |||||||    |||||| |||||||||||||| ||||| || ||||| |||||||| ||||| ||||| || || ||||| |||   || || ||||||||||||||    |
-------------------------gtatctctccttctttttgtccggctctgttccta--gttcgtacttaatctaatatcactttgatcgttgttatattttgca----gATGATTAATGAGAAGCCCCAAGTGATACAAGAGTATGAGTCAGGAAAAGCCATTCCAAATCAACAGATAATCACCAAACTGGAAAGGGCTCTTGGTGTGA

upper sequence: LOC_Os08g27850.2 (Oryza sativa), 3'ss of exon 3
lower sequence: EDP07421 (Chlamydomonas reinhardtii), 3'ss of exon 4
gtgccctgtccaaccatacaattttagaatttcctagcgttacattaacttttaccacagccactc-gcacatacactaaccttcaactaaaatatggtgtgttttgcaa---acagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCTATTCCGAACCAGCAGATCATCGGGAAGCTTGAAAGGGCTCTTGGAACAA
           ||  |     |  || |  || |  |||   || |  |    || |     |||| |||||| | ||      |  ||         || |    |||    ||||   ||||| |||||||| |||||||||||||||||||||   || || || || || ||||  ||| |  ||  ||||||     | || || ||     
----------taattac-tggtagtaaagctttc--gcgccgcaatg-ccgcaacgatg--tactcagcacatgc-ctggaaaaccccttctgctccctgcgccccgcaccccacagGCTATCAACGAGAAGCCGCAGGTGATCCAGGAGTACGAGCAGGGCAAGGCCATCCCCAACCCCCAGGTGCTCTCGAAGCTGTCCCGTGCGCTCGGCGTGG

upper sequence: LOC_Os08g27850.2 (Oryza sativa), 3'ss of exon 3
lower sequence: PP1S35_215V6.1 (Physcomitrella patens), 3'ss of exon 4
------------------------------------------------------------gtgccctgtccaaccata----caattttaga-atttcctagcgttacattaacttt-taccaca-gccactcgcacatacactaaccttcaactaaaatatggtgtgttttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCTATTCCGAACCAGCAGATCATCGGGAAGCTTGAAAGGGCTCTTGGAACAA
                                                               ||  | |  |   |     || || |||  | |||   |  ||  ||||| | |  | |       || |   |||    |   | || |     | |       |||| |   ||| | || ||||| ||||| ||  |  | || |||||||||||||| ||||| ||||| ||||| ||||||||   |||  | ||| | |  ||||| || |
gttttcccgcacttcttttatacaatcaaattgttggcagtatagaattcgcaatatttgacaccaggacggaatctgataccagttgtagtcacttctgggtattttattaagtgtgcagcgtgcattacacaggcatttggtggtcctcgaagcttacagttatcttttttcttgcagCTCATAAATGAAAAGCCACAAATTGTACAAGAGTACGAGTCAGGGAAAGCAATTCCCAACCAACAGATCATATCGAAATTGGAACGTGTGCTTGGTACGA

upper sequence: LOC_Os08g27850.2 (Oryza sativa), 3'ss of exon 3
lower sequence: EFJ33541 (Selaginella moellendorffii), 3'ss of exon 3
gtgccctgtccaaccatacaattttagaatttcctagcgttacattaacttttaccacagccactcgcacatacactaaccttcaactaaaatatggtgtgttttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCTATTCCGAACCAGCAGATCATCGGGAAGCTTGAAAGGGCTCTTGGAACAA
                                      |||    | | |  | |    |    |  |   |   || |  |          | |||| || || |    ||| ||||||| |||||||| ||||| ||||| ||||| || || || ||||| || || |||||||||||||||   ||||| ||  | || || ||| | |
--------------------------------------gtttggatgattgattctttggtttttt-ctttttggctgatttgttttccttgt-tggtttgcttggt--ccagCTGATCAACGAGAAGCCTCAGGTCATCCAAGAGTATGAATCGGGAAAAGCCATCCCCAACCAGCAGATCATCTCCAAGCTCGAGCGCGCGCTGGGAGCCA

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|88283376|gb|CI404822.1|CI404822
EST:     AAGAAGATGACCCAGGCACAGCTTGCACAG                         ATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: AAGAAGATGACCCAGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|86825841|gb|CI362327.1|CI362327
EST:     GGCTGGACAAGAAGATGACCCAGGCACAGCTTGCACAG                         ATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: GGCTGGACAAGAAGATGACCCAGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|15851123|gb|BI799399.1|BI799399
EST:     AAGATGACCCAGGCACAGCTTGCACAG                         ATGATCACATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGC
genomic: AAGATGACCCAGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCA-ATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGC
EST: gi|88527078|gb|CI455195.1|CI455195
EST:     CCAGGCACAGCTTGCACAG                         ATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: CCAGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|88215862|gb|CI215711.1|CI215711
EST:     GGCTGGACAAGAAGATGACTCCAGGCACAGCTTGCACAG                         ATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: GGCTGGACAAGAAGATGAC-CCAGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|88366544|gb|CI553794.1|CI553794
EST:     AAGAAGATGACCCAGGCACAGCTTGCACAG                         ATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: AAGAAGATGACCCAGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|88533504|gb|CI461072.1|CI461072
EST:     GGACAAGAAGATGACCCAGGCACAGCTTGCACAG                         ATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: GGACAAGAAGATGACCCAGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|88472635|gb|CI409906.1|CI409906
EST:     GGCTGGACAAGAAGATGACCCAGGCACAGCTTGCACAG                         ATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: GGCTGGACAAGAAGATGACCCAGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|88289313|gb|CI553289.1|CI553289
EST:     AAGATGACCCAGGCACAGCTTGCACAG                         ATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: AAGATGACCCAGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|86537152|gb|CI177358.1|CI177358
EST:     GGCTGGACAAGAAGATGACCCAGGCACAGCTTGCACAG                         ATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: GGCTGGACAAGAAGATGACCCAGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|88217076|gb|CI216780.1|CI216780
EST:     GGCTGGACAAGAAGATGACCCAGGCACAGCTTGCACAG                         ATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: GGCTGGACAAGAAGATGACCCAGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|88274753|gb|CI395159.1|CI395159
EST:     GGCTGGACAAGAAGATGACCCAGGCACAGCTTGCACAG                         ATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: GGCTGGACAAGAAGATGACCCAGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|88663542|gb|CI483008.1|CI483008
EST:     GGACAAGAAGATGACCCAGGCACAGCTTGCACAG                         ATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: GGACAAGAAGATGACCCAGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|88528491|gb|CI456733.1|CI456733
EST:     GGCTGGACAAGAAGATGACCCAGGCACAGCTTGCACAG                         ATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: GGCTGGACAAGAAGATGACCCAGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|88238422|gb|CI238271.1|CI238271
EST:     GGCTGGACAAGAAGATGACCCAGGCACAGCTTGCACAG                         ATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: GGCTGGACAAGAAGATGACCCAGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|88552389|gb|CI482392.1|CI482392
EST:     GATGACCCAGGCACAGCTTGCACAG                         ATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: GATGACCCAGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|88481087|gb|CI418358.1|CI418358
EST:     GAAGATGACCCAGGCACAGCTTGCACAG                         ATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: GAAGATGACCCAGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|88202195|gb|CI202550.1|CI202550
EST:     GGCTGGACAAGAAGATGACCCAGGCACAGCTTGCACAG                         ATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: GGCTGGACAAGAAGATGACCCAGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|88217440|gb|CI217289.1|CI217289
EST:     TGGACAAGAAGATGACCCAGGCACAGCTTGCACAG                         ATGATCAATGAGAAGCCCAAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: TGGACAAGAAGATGACCCAGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|88555376|gb|CI485629.1|CI485629
EST:     CACAGCTTGCACAG                         ATGATCAATGAGAAGCCCCACGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: CACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|33821661|gb|CF336646.1|CF336646
EST:     GGCTGGACAAGAAGATGACCCAGGCACAGCTTGCACAG                         ATGATCAATGAGAAGCCNCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: GGCTGGACAAGAAGATGACCCAGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|33655977|gb|CF278591.1|CF278591
EST:     GGCTGGACAAGAAGATGACCCAGGCACAGCTTGCACAG                         ATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: GGCTGGACAAGAAGATGACCCAGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|88507998|gb|CI435504.1|CI435504
EST:     GGCTGGACAAGAAGATGACCCAGGCACAGCTTGCACAG                         ATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: GGCTGGACAAGAAGATGACCCAGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|86597366|gb|CI280503.1|CI280503
EST:     CTGG-CAAGAAGATGACCCAGGCACAGCTTGCACAG                         ATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: CTGGACAAGAAGATGACCCAGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|88545178|gb|CI474721.1|CI474721
EST:     AGATGACCCAGGCACAGCTTGCACAG                         ATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: AGATGACCCAGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|88472489|gb|CI409760.1|CI409760
EST:     TGACCCAGGCACAGCTTGCACAG                         ATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: TGACCCAGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|88486654|gb|CI423925.1|CI423925
EST:     GCTGGACAAGAAGATGACCCAGGCACAGCTTGCACAG                         ATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: GCTGGACAAGAAGATGACCCAGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|8857956|gb|AU095274.1|AU095274
EST:     AAGATGACCCAGGCACAGCTTGCACAG                         ATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: AAGATGACCCAGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|88554863|gb|CI485074.1|CI485074
EST:     CAAGAAGATGACCCAGGCACAGCTTGCACAG                         ATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: CAAGAAGATGACCCAGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|88542192|gb|CI471505.1|CI471505
EST:     GACCCAGGCACAGCTTGCACAG                         ATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: GACCCAGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|163922655|gb|EG712176.1|EG712176
EST:     GGCTGGACAAGAAGATGACCCAGGCACAGCTTGCACAG                         ATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: GGCTGGACAAGAAGATGACCCAGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|88375802|gb|CI528106.1|CI528106
EST:     GACAAGAAGATGACCCAGGCACAGCTTGCACAG                         ATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: GACAAGAAGATGACCCAGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|88490527|gb|CI427799.1|CI427799
EST:     GGCTGGACAAGAAGATGACCCAGGCACAGCTTGCACAG                         ATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAGGCT
genomic: GGCTGGACAAGAAGATGACCCAGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|88523145|gb|CI450948.1|CI450948
EST:     GGCACAGCTTGCACAG                         ATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: GGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|88255172|gb|CI353996.1|CI353996
EST:     CCCAGGCACAGCTTGCACAG                         ATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: CCCAGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|88282571|gb|CI403967.1|CI403967
EST:     GGCTGGACAAGAAGATGACCCAGGCACAGCTTGCACAG                         ATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: GGCTGGACAAGAAGATGACCCAGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|86863169|gb|CI344890.1|CI344890
EST:     GGCTGGACAAGAAGATGACCCAGGCACAGCTTGCACAG                         ATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: GGCTGGACAAGAAGATGACCCAGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|88544442|gb|CI472541.1|CI472541
EST:     AAGAAGATGACCCAGGCACAGCTTGCACAG                         ATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: AAGAAGATGACCCAGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|88510592|gb|CI438098.1|CI438098
EST:     AGGCACAGCTTGCACAG                         ATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: AGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|88480360|gb|CI417631.1|CI417631
EST:     ACAAGAAGATGACCCAGGCACAGCTTGCACAG                         ATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: ACAAGAAGATGACCCAGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|86512136|gb|CI154769.1|CI154769
EST:     GGCTGGACAAGAAGATGACCCAGGCACAGCTTGCACAG                         ATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: GGCTGGACAAGAAGATGACCCAGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|88476558|gb|CI413829.1|CI413829
EST:     GAAGATGACCCAGGCACAGCTTGCACAG                         ATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: GAAGATGACCCAGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|88981841|gb|CI027419.1|CI027419
EST:     CAGGCACAGCTTGCACAG                         ATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: CAGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|88508494|gb|CI436000.1|CI436000
EST:     GGCTGGACAAGAAGATGACCCAGGCACAGCTTGCACAG                         ATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: GGCTGGACAAGAAGATGACCCAGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|86416482|gb|CI030493.1|CI030493
EST:     GGCTGGACAAGAAGATGACCCAGGCACAGCTTGCACAG                         ATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: GGCTGGACAAGAAGATGACCCAGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|86510276|gb|CI152909.1|CI152909
EST:     ATGACCCAGGCACAGCTTGCACAG                         ATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: ATGACCCAGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
EST: gi|88985896|gb|CI033225.1|CI033225
EST:     CAGCTTGCACAG                         ATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT
genomic: CAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCT

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 75 (upstream exon), 75 (downstream exon)
Score: 441

GCTGGACAAGAAGATGACCCAGGCACAGCTTGCACAGgtgccctgtc ... ttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCTATTCCGAACCAGCAGATCATCGGGAAGCTTGAAAGGGCTCTTGGAACAA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agccactcgcacatacactaaccttcaactaaaatatggtgtgttttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCTATTCCGAACCAGCAGATCATCGGGAAGCTTGAAAGGGCTCTTGGAACAA
                       ttcaactaaaatat  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgccctgtccaaccatacaattttagaatttcctagcgttacattaacttttaccacagccactcgcacatacactaaccttcaactaaaatatggtgtgttttgcaaacagATGATCAATGAGAAGCCCCAGGTGATCCAGGAGTACGAGTCAGGTAAAGCTATTCCGAACCAGCAGATCATCGGGAAGCTTGAAAGGGCTCTTGGAACAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGATCA