Skip to another splice site:
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 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgcggtgttattacttcaagaacacgttgacattggaagtgcattcatgaagataatttcatatcctttgtatgcttatacactgagtatgtcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAGGAAGCTCCAGCACAAGACTTTGCTGCCATCACTGATTACACCGCACCTG

Basic information

species Oryza sativa
transcript LOC_Os03g08440.1
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g08440.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G092719_T01 (Zea mays), 3'ss of exon 3
gtatgcggtgttattacttcaagaacacgttgacattggaagtgcattca-tgaagataatttca-tatcctttgtatgcttatacactgagtatgtcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAGGAAGCTCCAGCA---CAAGACTTTGCTGCCATCACTGATTACACCGCACCTG
||||||    ||||  |     |  ||   ||||||| ||  |||| | | |  ||||  |||   || |||||| || ||| ||   |||  |||   ||||||||| |||||||| ||||| |||||||| ||||| || ||||||||||||||||||| | | ||    |  || ||||| || ||||||||||||   | |    
gtatgctagcttatggcgct--gttcaaaatgacattagagatgcaatgagtccagatttttttggtaacctttgcattcttgta---tgataatgctgtttgcagGTCGATCTGTTCTTCTATAGAGACCCAGAGGAAGCAAAGGAGCAGGAGGAGGAAGTTGCCGCGGCCCCTGAGTTTGCCGCAATCACTGATTACCAAGGAG---

upper sequence: LOC_Os03g08440.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G145308_T01 (Zea mays), 3'ss of exon 3
gtatgcggtgttattacttcaagaacacgttgacattggaagtgcattcatgaagataatttcatatcctttgtatgcttatacactgagtatgtcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAGGAAGCTCC---AGCACAAGACTTTGCTGCCATCACTGATTACACCGCACCTG
||||||    |||| |      |  ||   ||||||||  | ||  | ||    | |   ||  ||  || || || ||||||     |  ||||  ||||||||||||||| || ||||||||||| || ||||| || ||||| ||||||||||||||| |    || |  || ||||| || ||||||||||||   |      
gtatgctagcttatgatgct--gttcaaaatgacattgtga-tgattcca---ggttttattggtaaactctgcattcttatatgacaataatgttgtttgcagGTTGATCTATTCTTCTACAGAGATCCAGAGGAAGCAAAGGAACAGGAGGAGGAAGCTGCCGTGGCCCCTGAGTTTGCCGCAATCACTGATTACCAAGGGG---

upper sequence: LOC_Os03g08440.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G380152_T01 (Zea mays), 3'ss of exon 2
gtatgcggtgttattacttcaagaacacgttgacattggaagtgcattcatg--aagataatttcatatcctttgtatgcttatacactgagtatgtcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAGGAAGCTC---CAGCACAAGACTTTGCTGCCATCACTGATTACACCGCACCTG
||||||    |||| |  |   |  ||   ||||||||||  ||   | ||   | | |   ||  || |||||  || |||||    | |  ||||| |||||||||||||||||| |||||||||||||| ||||| || |||||||||||||||||||||    | || |  || |||||| |  | |||||||||   | |    
gtatgctagcttatgatgtt--gtccaaaatgacattggagatgtggtgattccaggttttattggtaacctttccattcttatttgataataatgtcgtttgcagGTTGATCTGTTCTTCTACAGAGACCCAGAGGAAGCAAAGGAGCAGGAGGAGGAAGCTGTTGCGGCCCCTGAGTTTGCTACAGTAACTGATTACCAAGGAG---

upper sequence: LOC_Os03g08440.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G126821_T02 (Zea mays), 3'ss of exon 2
---gtatgcggtgttattacttcaagaacacgttgacattggaagtgcattcatgaagataatttcatatcctttgtatgcttatacactgagtatgtcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAGGAAGCTCCAG---CACAAGACTTTGCTGCCATCACTGATTACACCGCACCTG
     ||||    |||| |  ||  |  ||   ||||||||||  ||   | ||||    |   | ||| |||| | || ||||||   |||  ||||  ||||||||| ||| |||| |||||||| ||||| ||||| || ||||||||||||||||||||| | |   | |  || ||||| || ||||||||||||   | |    
gtatgatgctagcttatgatgtc--gttcaaaatgacattggagatg---tgatgagtccagacttataaccttggcattcttata---tgataatgttgtttgcagGTGGATTTGTTCTTCTACAGGGACCCAGAGGAAGCAAAGGAGCAGGAGGAGGAAGCTGCTGTTGCCCCTGAGTTTGCCGCAATCACTGATTACCAAGGAG---

upper sequence: LOC_Os03g08440.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GRMZM2G099657_T01 (Zea mays), 3'ss of exon 3
gtatgcggtgttattacttcaagaacacgttgacattggaagtgcattcatg--aagataatttcatatcctttgtatgcttatacactgagtatgtcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAGGAAGCTCCAGCA---CAAGACTTTGCTGCCATCACTGATTACACCGCACCTG
||||||    |||| |      |  ||   ||||||||||  ||   | ||   | | |   ||  || | |||  || |||||    | |  ||||| |||||||||||||||||| |||||||||||||| ||||| || ||||||||||||||||||||| | ||    |  || ||||||||  |||||||||||   | |    
gtatgctagcttatgatgct--gtccaaaatgacattggagatgtggtgattccatgttttattggtaacatttccattcttatttgataataatgtcgtttgcagGTTGATCTGTTCTTCTACAGAGACCCAGAGGAAGCAAAGGAGCAGGAGGAGGAAGCTGCTGCGGCCCCTGAGTTTGCTGCAGTCACTGATTACCAAGGAG---

upper sequence: LOC_Os03g08440.1 (Oryza sativa), 3'ss of exon 3
lower sequence: GLYMA16G01460.1 (Glycine max), 3'ss of exon 3
gtatgcggtgttattacttcaagaacacgttgacattggaagtgcattcatgaagataatttcatatcctttgtatgcttatacactgagtatgtcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCA---GGAGGAGGAAGCTCCAGCACAAGACTTTGCTGCCATCACTGATTACACCGCACCTG
  |  | || |||  |  |   |      ||      |||     | |  |       ||||  |    ||| |||  |     | ||  | |   |  ||||||||||| |||||||||| ||||| || |||||||| ||| | ||   ||||||||||||||| |||   || | |||   |||||| |||| ||  |||  ||
-aactctgt-ttaagatctgggggcttaattcggggaggactaatacttctctgctggatttgttgaagtttatat--tggctaaatgtttttcgttgatgcagGTTGATTTGTTTTTCTATAGAGAACCAGAGGAGGCTAAGCAACAAGAGGAGGAGGAAGCTCCGGCAGGTGATTATGC---CATCACAGATTTCAATGCAGGTG

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|163923447|gb|EG709388.1|EG709388
EST:     TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATG                         GTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|58691092|gb|CK079779.1|CK079779
EST:     TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATG                         GTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|88241655|gb|CI241504.1|CI241504
EST:     AGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATG                         GTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
genomic: AGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|58668357|gb|CK057043.1|CK057043
EST:     TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATG                         GTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|86257480|gb|CI004297.1|CI004297
EST:     GGGATGTTATG                         GTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
genomic: GGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|87033335|gb|CI187959.1|CI187959
EST:     ACAAGTGGGATGTTATG                         GTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
genomic: ACAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|87037508|gb|CI192130.1|CI192130
EST:     TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATG                         GTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|88225182|gb|CI225098.1|CI225098
EST:     TTCTGCAGATGAGGGGTACTATCCTCGCTGGCCACAAGTGGGATGTTATG                         GTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|29659339|gb|CB655614.1|CB655614
EST:     TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATG                         GTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|89172737|gb|CI022616.1|CI022616
EST:     AGTGGGATGTTATG                         GTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
genomic: AGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|86259790|gb|CI065663.1|CI065663
EST:     CAAGTGGGATGTTATG                         GTTGATCTGTTGTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
genomic: CAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|86601656|gb|CI256161.1|CI256161
EST:     TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATG                         GTTGATCTGTTTTTCTACAGAGTCCCTGAGGAGGCCAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|218482310|gb|FG952700.1|FG952700
EST:     TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATG                         GTTGATCTGTATAACTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|4715734|gb|AU056850.1|AU056850
EST:     TT-TGCAGATGAGGGGTACTATCCTTCCTGGCCACAAGTGGGATGTTATG                         GTTGATCTGGTTTTTCTACAGAGACCCTGAGGAGGCCA
genomic: TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTG-TTTTTCTACAGAGACCCTGAGGAGGCCA
EST: gi|86258229|gb|CI064582.1|CI064582
EST:     TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATG                         GTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|86601644|gb|CI256149.1|CI256149
EST:     TTCTGCAGATGAGGGGTACTATCCTCCGTGGCCACAAGTGGGATGTTATG                         GTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|89198941|gb|CI253015.1|CI253015
EST:     TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATG                         GTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|2311301|gb|C27456.1|C27456
EST:     TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATG                         GTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|88200420|gb|CI200270.1|CI200270
EST:     ACTATCCTGCCTGGCCACAAGTGGGATGTTATG                         GTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
genomic: ACTATCCTCCCTGGCCACAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|86421592|gb|CI057581.1|CI057581
EST:     CAAGTGGGATGTTATG                         GTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
genomic: CAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|33822553|gb|CF337082.1|CF337082
EST:     CTGCAGATGAGGGGTACTATCCCTCCCTGGCCACAAGTGGGATGTTATG                         GTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
genomic: CTGCAGATGAGGGGTACTAT-CCTCCCTGGCCACAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|29685943|gb|CB682218.1|CB682218
EST:     TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATG                         GTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|88832199|gb|CI017433.1|CI017433
EST:     CAAGTGGGATGTTATG                         GTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
genomic: CAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|58679536|gb|CK068223.1|CK068223
EST:     TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATG                         GTTGATCTGTTTTTCTAC
genomic: TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTAC
EST: gi|4715735|gb|AU056851.1|AU056851
EST:     TCTTCCAGATGAGGGNTACTATCCTCCCTGCCCACAAGTGGGATNTTATG                         GTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
genomic: TC-TGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|3769064|gb|AU033091.1|AU033091
EST:     CTGCAGATGAGGGGTACTAATCCTTCCCTGGCCACAAGTGGGATGTTATN                         GTTGATCTGTTTTTCTACAGAAGA-CCTGAGGAGNCCCAAGGAGCAGGAGG
genomic: CTGCAGATGAGGGGTACT-ATCC-TCCCTGGCCACAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAG-AGACCCTGAGGAG-GCCAAGGAGCAGGAGG
EST: gi|86254612|gb|CI059339.1|CI059339
EST:     CAAGTGGGATGTTATG                         GTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
genomic: CAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|8528411|gb|AU093226.1|AU093226
EST:     TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATG                         GTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|29685944|gb|CB682219.1|CB682219
EST:     TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATG                         GTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|86254568|gb|CI059295.1|CI059295
EST:     GTGGGATGTTATG                         GTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
genomic: GTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|87018085|gb|CI275899.1|CI275899
EST:     TTCTGCAGATGAGGGGTACTATCCTCCGTGGCCACAAGTGGGATGTTATG                         CTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|86413669|gb|CI019254.1|CI019254
EST:     TGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATG                         GTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
genomic: TGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|58681996|gb|CK070683.1|CK070683
EST:     TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATG                         GTTGATCTGTTTTTCTACAGA
genomic: TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGA
EST: gi|58676560|gb|CK065247.1|CK065247
EST:     TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATG                         GTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|58597385|gb|CK007913.1|CK007913
EST:     TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATG                         GTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|88222055|gb|CI222011.1|CI222011
EST:     ACTATCCTCCCTGGCCACAAGTGGGATGTTATG                         CTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
genomic: ACTATCCTCCCTGGCCACAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|86424355|gb|CI063116.1|CI063116
EST:     CAAGTGGGATGTTATG                         GTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
genomic: CAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|88904131|gb|CI006364.1|CI006364
EST:     AAGTGGGATGTTATG                         GTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
genomic: AAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|33798863|gb|CF325288.1|CF325288
EST:     TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATG                         GTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|29687031|gb|CB683306.1|CB683306
EST:     TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATG                         GTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAAGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|88205406|gb|CI205107.1|CI205107
EST:     CAAGTGGGATGTTATG                         NNTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
genomic: CAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|86257167|gb|CI061930.1|CI061930
EST:     TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATG                         GTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|218502395|gb|FG968311.1|FG968311
EST:     TCTGCAGATGAGGGGTACTAATCCTCCCTGGCCACAAGTGGGATGTTATG                         GTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
genomic: TCTGCAGATGAGGGGTACTA-TCCTCCCTGGCCACAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|86822781|gb|CI251844.1|CI251844
EST:     TTCTGCAGATGAGGGGTACTATCCTCCTTGGCCACAAGTGGGATGTTATG                         GTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|29659340|gb|CB655615.1|CB655615
EST:     TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATG                         GTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|89197488|gb|CI010108.1|CI010108
EST:     CTGGCCACAAGTGGGATGTTATG                         GTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
genomic: CTGGCCACAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|23514080|gb|BU673457.1|BU673457
EST:     TTCTGCAGATGAGGGGTACTATCCTCCGTGGCCACAAGTGGGATGTTATG                         GTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|88261065|gb|CI364641.1|CI364641
EST:     TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATG                         GTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCC
genomic: TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCC
EST: gi|58681348|gb|CK070035.1|CK070035
EST:     TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATG                         GTTGATCTGTTT
genomic: TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTT
EST: gi|117242413|gb|CT842992.1|CT842992
EST:     TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATG                         GTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|29641192|gb|CB646199.1|CB646199
EST:     TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATG                         GTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
genomic: TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAG
EST: gi|218501920|gb|FG954609.1|FG954609
EST:     TTCTGCAGATGCGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATG                         GTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAA-AGACAGGAGGA
genomic: TTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAG-CAGGAGGA

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: 110

CAAGGGGAGGAACAGCATTGGGTGCCTGTTCTGGCTCTTGGCTAGGATGGTTCTGCAGATGAGGGGTACTATCCTCCCTGGCCACAAGTGGGATGTTATGgtatgcggtg ... tcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAGGAAGCTCCAGCACAAGACTTTGCTGCCATCACTGATTACACCGCACCTG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgaagataatttcatatcctttgtatgcttatacactgagtatgtcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAGGAAGCTCCAGCACAAGACTTTGCTGCCATCACTGATTACACCGCACCTG
                                           tgtctttt  CT-rich tract
      ataatttcatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgcggtgttattacttcaagaacacgttgacattggaagtgcattcatgaagataatttcatatcctttgtatgcttatacactgagtatgtcttttgcagGTTGATCTGTTTTTCTACAGAGACCCTGAGGAGGCCAAGGAGCAGGAGGAGGAAGCTCCAGCACAAGACTTTGCTGCCATCACTGATTACACCGCACCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC