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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gatttggtccgatcgggtgtgggatttcagaaatcgacagccttttcccgtcagacaggcaggtcctgactacgctgttcttttgcttgatccgatgcagGCATGGGCGCAGCGTACGGGACCGCGAAGAGCGGCGTCGGCGTGGCGTCGATGGGTGTGATGCGGCCGGAGCTCGTCATGAAGTCCATCGTGCCCGTGGT

Basic information

species Zea mays
transcript AC216067.3_FGT002
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AC216067.3_FGT002 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os11g06890.2 (Oryza sativa), 3'ss of exon 1
--gatttggtccgatcgggtgtg-ggatttcagaaatcgacagcctt---ttcccgtcagacaggcaggtcctgactacgctgttcttttgcttgatccgatgcagGCATGGGCGCAGCGTACGGGACCGCGAAGAGCGGCGTCGGCGTGGCGTCGATGGGTGTGATGCGGCCGGAGCTCGTCATGAAGTCCATCGTGCCCGTGGT
  |||| |    |||||| | || ||     | || | |  ||| ||   |||   ||     ||  ||   ||  ||   | | ||||   | |||| | |||||||||||| || ||||||||||| |||||||||||||||||||||||||| ||||| |||||||| ||||||||||| |||||||||||||||||||||||
ccgattgga---gatcggatttgtggggaaaaaaagttgggagctttggattctgttcttgatggggggatttgctta---tttgctttcattcgatctgttgcagGCATGGGTGCGGCGTACGGGACGGCGAAGAGCGGCGTCGGCGTGGCGTCCATGGGCGTGATGCGCCCGGAGCTCGTGATGAAGTCCATCGTGCCCGTGGT

upper sequence: AC216067.3_FGT002 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA13G03470.1 (Glycine max), 3'ss of exon 1
----------------------------------------------------------------------------gatttggtccgatcgggtgtggg---atttcagaaatcg----acagccttttcccgt-----cagacaggcaggtc-ctgactacgctgttcttttgcttgatccgatgcagGCATGGGCGCAGCGTACGGGACCGCGAAGAGCGGCGTCGGCGTGGCGTCGATGGGTGTGATGCGGCCGGAGCTCGTCATGAAGTCCATCGTGCCCGTGGT
                                                                            ||| |       | || ||       |||  | ||| |       | |  | | |  |     ||||     |  |   | | |  |  | | ||||  || ||     | ||| ||||| || ||||| || || |||||||| || || || |||||||||||||| |||||| |||||||||| || |||||||| |||||||| |||||
gttcgtcactctctttttatttgtaaaattttattcaatataacgataacaataataataataatattagggtctagatctatcgtagttggttgaacagttattgtaaaaacctttttgtacctgtcttcgattgctacagattaaaaaatgatttattctgtggctgttttattttatgattggtagGTATGGGAGCGGCGTATGGAACGGCGAAGAGTGGGGTGGGGGTGGCGTCGATGGGAGTGATGAGGCCGGAGCTGGTGATGAAGTCGATCGTGCCGGTGGT

upper sequence: AC216067.3_FGT002 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA02G05630.2 (Glycine max), 3'ss of exon 1
gatttggtccgatcgggtgtgggatttcagaaatcgaca-gccttttcccgtcagacaggcag-gtcctgactacgctgttcttttgcttgatccgatgcagGCATGGGCGCAGCGTACGGGACCGCGAAGAGCGGCGTCGGCGTGGCGTCGATGGGTGTGATGCGGCCGGAGCTCGTCATGAAGTCCATCGTGCCCGTGGT
    |       |      |   ||   |||  |      | ||  |  |   | || | |   ||  |  ||       | | | | ||       | |||| |||||||| |||||||| |||||||||||||||||||| || ||||||||||| |||||| |||||||||| || ||||| || |||||||| || ||
---gtaactaactaactcatcaaatcaaagagttttttttgtctcatttcccgaaaccgtcgtcgttttatcttaaaccgtgtgtcgtttttgttttttcagGTATGGGCGCGGCGTACGGCACCGCGAAGAGCGGCGTCGGGGTTGCGTCGATGGGCGTGATGAGGCCGGAGCTGGTGATGAAATCGATCGTGCCGGTTGT

upper sequence: AC216067.3_FGT002 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA14G23990.1 (Glycine max), 3'ss of exon 1
----------------------------------------------------------------------------------------gatttggtccgatcgggtgtgggatttcagaaatcgacagccttttcccgtcagacaggcaggtcctgactacgctgttcttttgcttgatccgat--gcagGCATGGGCGCAGCGTACGGGACCGCGAAGAGCGGCGTCGGCGTGGCGTCGATGGGTGTGATGCGGCCGGAGCTCGTCATGAAGTCCATCGTGCCCGTGGT
                                                                                        | | | |   ||     ||     |||| |  |||        || |   | | | |   | |   | | | ||  |   || |  ||  |  |||  | ||| ||||| || |||||||| || || ||||| || || || |||||||||||||| |||||| |||||||||| || |||||||| |||||||| |||||
gttcgccactctctctatctctctctttttgtttataattttttatttaatttaacgataacaacaatactactaataataataccaagctctagcgtgagttattgaaaactttctgttatctgtctttgttacggattaaaaaaatatgattt-attccgtggcctttatttttattatgattggtagGTATGGGAGCGGCGTACGGAACGGCAAAGAGTGGGGTGGGGGTGGCGTCGATGGGCGTGATGAGGCCGGAGCTGGTGATGAAGTCGATCGTGCCGGTGGT

upper sequence: AC216067.3_FGT002 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA12G04090.1 (Glycine max), 3'ss of exon 1
gatttggtccgatcgggtgtgggatttcagaaatc---gacagccttttcccgtcagacaggcaggtcctgactacgctgttcttttgcttgatccgatgcagGCATGGGCGCAGCGTACGGGACCGCGAAGAGCGGCGTCGGCGTGGCGTCGATGGGTGTGATGCGGCCGGAGCTCGTCATGAAGTCCATCGTGCCCGTGGT
  | |     ||  |     |  |||       ||   || ||| ||      || |  ||     || | | || |   || |||    ||||  || | ||| ||||| || || || || || |||||||| ||||| |||||||| ||||||||||||||| | |||||||| || |||||||| || || || || ||
tgtatataaagaaagaaaaagaaattctgagcttcttcgatagctttgcattttctg-tagatttatctttaatatga-attgtttgaactgatg-gaggaagGTATGGGAGCTGCCTATGGCACAGCGAAGAGTGGCGTGGGCGTGGCTTCGATGGGTGTGATGAGACCGGAGCTGGTGATGAAGTCTATTGTCCCTGTTGT

upper sequence: AC216067.3_FGT002 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA11G11760.1 (Glycine max), 3'ss of exon 1
gatttggtccgatcgggtgtgggatttcagaaatcgacagccttttcccgtcagacaggcaggtcctgactacgctgttcttt-----tgcttgatccgatgcagGCATGGGCGCAGCGTACGGGACCGCGAAGAGCGGCGTCGGCGTGGCGTCGATGGGTGTGATGCGGCCGGAGCTCGTCATGAAGTCCATCGTGCCCGTGGT
    |  | ||      |   | |   || | |    |||   ||   ||| ||    |||  |  |   ||   |  |||||     |  |||||  |||| ||| ||||| || || || || || |||||||| ||||| |||||||| ||||||||||||||| | || ||||| || |||||||| || || || || ||
----ttatgcgtatatataaagaaagacaaagaaattcagagcttcttcgttagctttgcattttttctgtagatttatctttaatactaattgatg-gatgaagGTATGGGAGCTGCCTATGGCACAGCGAAGAGTGGCGTTGGCGTGGCTTCGATGGGTGTGATGAGACCAGAGCTGGTGATGAAGTCTATTGTCCCTGTTGT

upper sequence: AC216067.3_FGT002 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA16G24220.1 (Glycine max), 3'ss of exon 1
-gatttggtccgatcgggtgtgggatttcagaaatcgacagccttttcccgtcagacaggcag-gtcctgactacgctgttcttttgcttgatccgatgcagGCATGGGCGCAGCGTACGGGACCGCGAAGAGCGGCGTCGGCGTGGCGTCGATGGGTGTGATGCGGCCGGAGCTCGTCATGAAGTCCATCGTGCCCGTGGT
  |  |    | |||   |    || ||      |                  | || |||   ||  |  ||       | | | | ||       | |||| ||||| || |||||||| |||||||||||||||||||| || ||||||||||| |||||| |||||||||| || ||||| || |||||||| || ||
gtaactaactc-atcaaatcaaagagtttttttttttttttttacaatttccgaaaccggcgtcgttttatctgaaaccgtgtgtcgtttttgttttttcagGTATGGGAGCGGCGTACGGAACCGCGAAGAGCGGCGTCGGGGTTGCGTCGATGGGCGTGATGAGGCCGGAGCTGGTGATGAAATCGATCGTGCCGGTTGT

upper sequence: AC216067.3_FGT002 (Zea mays), 3'ss of exon 1
lower sequence: AT4G38920.1 (Arabidopsis thaliana), 3'ss of exon 1
gatt-tggtccgatcgggtgtgggatttcagaaatcgacagccttttcccgtcagacaggcaggtcctgact----acgctgttcttttgcttgatccgatgcagGCATGGGCGCAGCGTACGGGACCGCGAAGAGCGGCGTCGGCGTGGCGTCGATGGGTGTGATGCGGCCGGAGCTCGTCATGAAGTCCATCGTGCCCGTGGT
 ||| || |         | | | |      |  | ||   | | |      ||   ||  || |  ||||     |   |||   | |   || |   |   ||| ||||| || ||||||||||| || ||||| || || || ||||| || |||||||||||| |||||||| | || |||||||| || || || || ||
aattatgctttttcttcatatcgaag---gcatgttgattacttgtgtaaacca--tagttagattgtgaccttaaagagtgtgtatctttgtgttattaacaagGTATGGGAGCTGCGTACGGGACAGCAAAGAGTGGTGTGGGAGTGGCATCTATGGGTGTGATGAGGCCGGAGTTGGTGATGAAGTCTATTGTCCCAGTTGT

upper sequence: AC216067.3_FGT002 (Zea mays), 3'ss of exon 1
lower sequence: AT1G19910.1 (Arabidopsis thaliana), 3'ss of exon 1
----gatttggtccgatcgggtgtgggatttcagaaatcgacagccttttcccgtcagacaggcaggtcctga-ctacgctgttct--tttgcttga--tccgatgcagGCATGGGCGCAGCGTACGGGACCGCGAAGAGCGGCGTCGGCGTGGCGTCGATGGGTGTGATGCGGCCGGAGCTCGTCATGAAGTCCATCGTGCCCGTGGT
     || || |     |        ||| ||  |  ||       |||||||   |   |    | |||  | ||   ||| ||   || | | |   |  | | |||| ||||| |||||||||||||| ||||||||||| || || || |||||||||||||||||| | || ||||| || ||||| || || || || || ||
gtaccatctgatttctccattcccccgatctcttatctct----ttttttcccagaattgattttgatccaaatctgatctgatccgattcgatcggattatgtttcagGTATGGGAGCAGCGTACGGGACAGCGAAGAGCGGGGTTGGTGTAGCGTCGATGGGTGTGATGAGACCAGAGCTTGTGATGAAATCGATTGTTCCTGTTGT

upper sequence: AC216067.3_FGT002 (Zea mays), 3'ss of exon 1
lower sequence: AT1G75630.2 (Arabidopsis thaliana), 3'ss of exon 1
gatttggtccgatcgggtgtgggatttcagaaatcgacagccttttcccgtcagacaggcaggtcctgactacgctgttc---ttttgcttgatccgatgcagGCATGGGCGCAGCGTACGGGACCGCGAAGAGCGGCGTCGGCGTGGCGTCGATGGGTGTGATGCGGCCGGAGCTCGTCATGAAGTCCATCGTGCCCGTGGT
            |  | | |  |||  |     | | ||   |   |   |   |    |   |  |    |  |  |||   |     |||||    | |||| ||||| |||||||||||||| |||||||| || || || || ||||||||||| |||||| | || || || || ||||| || || || || || ||
-----------gtaagatttcagatccctctc-ttgtcaatttccccgaattgaatcacccaatgtttttgattcgattcgaatccgatttgatgtttt-cagGTATGGGAGCAGCGTACGGGACGGCGAAGAGTGGAGTTGGAGTTGCGTCGATGGGAGTGATGAGACCTGAACTTGTTATGAAATCGATTGTTCCTGTTGT

upper sequence: AC216067.3_FGT002 (Zea mays), 3'ss of exon 1
lower sequence: Vv18s0001g13630.t01 (Vitis vinifera), 3'ss of exon 1
gatttggtccgatcgggtgtgggatttcagaaatcgacagcctt---ttcccgtcagacaggcaggtcctgactacgctgttcttttgcttgatccgatg---cagGCATGGGCGCAGCGTACGGGACCGCGAAGAGCGGCGTCGGCGTGGCGTCGATGGGTGTGATGCGGCCGGAGCTCGTCATGAAGTCCATCGTGCCCGTGGT
   |     | | |       ||   | |     || | | |||   ||    |  |       ||   |    |||  | |||  |  || ||  |      |||| ||||| || || || || ||||| |||||||| || || ||||| || |||||||||||| | |||||||| || |||||||| ||||| || || ||
---tctcagcaaccaaaccgagg---ttaatgtccgtccgtcttgggtttggatttggatctagggcttttcaaacgtggatctgattttttatttgggatctcagGTATGGGAGCTGCATATGGAACCGCAAAGAGCGGGGTTGGTGTGGCCTCCATGGGTGTGATGAGACCGGAGCTTGTTATGAAGTCGATCGTTCCAGTTGT

upper sequence: AC216067.3_FGT002 (Zea mays), 3'ss of exon 1
lower sequence: Vv03s0038g00790.t01 (Vitis vinifera), 3'ss of exon 1
-------gatttggtccgatcgggtgtgggatttcagaaatcgacagccttttcccgtcagacaggcaggtcctgactacgctgttcttttgcttgatccgatgcagGCATGGGCGCAGCGTACGGGACCGCGAAGAGCGGCGTCGGCGTGGCGTCGATGGGTGTGATGCGGCCGGAGCTCGTCATGAAGTCCATCGTGCCCGTGGT
        ||||  ||    |   |     ||||    |||   | | | |        |||    | | | |||| |   ||||| ||||   | ||    |  ||| ||||| || ||||| || || |||||||| |||||||| |||||||||||||| |||||| |||||||||| || |||||||| || || || || ||
attcgataatttcttct--ccttcttcttcattttctcaataaccggacatagatatatagatcttc-gattctgattg-actgttgtttt-tataattt--ttgagGTATGGGAGCTGCGTATGGAACGGCGAAGAGTGGCGTCGGAGTGGCGTCGATGGGAGTGATGAGGCCGGAGCTGGTGATGAAGTCGATTGTACCAGTTGT

upper sequence: AC216067.3_FGT002 (Zea mays), 3'ss of exon 1
lower sequence: Vv18s0001g02650.t01 (Vitis vinifera), 3'ss of exon 1
gatttggtccgatcgggtgtgggattt-cagaaatcgacagccttttcccgtc-agacaggcaggtcctgactac-gctgttcttttgcttgatccgatgcagGCATGGGCGCAGCGTACGGGACCGCGAAGAGCGGCGTCGGCGTGGCGTCGATGGGTGTGATGCGGCCGGAGCTCGTCATGAAGTCCATCGTGCCCGTGGT
  |  |     |    |||| | |||| |  | ||||  | |  ||||| ||  | |||    || | |   |   |   |  || |  | | | |  | ||||||||||||| || || ||||| || |||||||| || || ||||| || ||||| |||||||| ||||||||||||||||| || || || || || ||
--tccgacgaaacaaagtgttgtattttcccacatcgg-aactgtttcctgtggaaacaaatggggcttttttcttggaatgtttctaatggcttctttacagGCATGGGCGCGGCCTATGGGACTGCAAAGAGCGGGGTGGGTGTGGCCTCCATGGGAGTGATGCGACCGGAGCTCGTCATGAAATCGATTGTCCCAGTTGT

upper sequence: AC216067.3_FGT002 (Zea mays), 3'ss of exon 1
lower sequence: EDP08338 (Chlamydomonas reinhardtii), 3'ss of exon 1
---------------------------------------------------------------------------------------------------gatttggtccgatcgggtgtgggatttcagaaatcgacagccttttcccgtcagacaggcaggtcctgactacgctgttcttttgcttgatc-cgatgcagGCATGGGCGCAGCGTACGGGACCGCGAAGAGCGGCGTCGGCGTGGCGTCGATGGGTGTGATGCGGCCGGAGCTCGTCATGAAGTCCATCGTGCCCGTGGT
                                                                                                      ||   | |   |   ||  ||    | ||  |  ||||||        |    |||| |   ||| |    ||   |     ||| |||    ||||||||||||||| ||||| || || || |||   ||||| ||| | || || |||||||| ||||| || ||||| |||||||||  ||| |||||||||||
gtgagtatggtggtggacggcgggaggaagagacgccacacagccgtgttcgcgttggagggaggcagattcgcgctttctggcccccagtcaccttgcagcttcaccagcatgcaagttcgacgata-aatccagcagcctgcctatcccgcggaggctgagtctgccc---ctccccgcaaacttcatcattgtgcagGCATGGGCGCCGCGTATGGCACTGCCAAGTCGGGCGTGGGCATTGCCTCCATGGGTGTCATGCGCCCTGAGCTGGTCATGAAGAGCATTGTGCCCGTGGT

upper sequence: AC216067.3_FGT002 (Zea mays), 3'ss of exon 1
lower sequence: PP1S45_100V6.1 (Physcomitrella patens), 3'ss of exon 1
gatttggtccgatcgggtgtgggatttcagaaatcgacagccttttcccgtcagacaggcaggtcctgactacgctgttcttttgcttgatccga-tgcagGCATGGGCGCAGCGTACGGGACCGCGAAGAGCGGCGTCGGCGTGGCGTCGATGGGTGTGATGCGGCCGGAGCTCGTCATGAAGTCCATCGTGCCCGTGGT
 |    ||    | | | |      ||      | ||  | ||||   |  |   |  ||   |      || | |   |    |     |  ||  |||||||||||||| || || || || || ||||| || || || ||||| || ||||||||||||||||| ||||| || |||||||| |||||||| |||||
-aagcagtgacgttgagggcctatcttgttgttttgaaggactttgatcagcttgctcgctctttaccgatatgttaacccgaggaggtttttgagcgcagGCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCATGGGTGTGATGCGGCCCGAGCTGGTGATGAAGTCGATCGTGCCAGTGGT

upper sequence: AC216067.3_FGT002 (Zea mays), 3'ss of exon 1
lower sequence: PP1S1_66V6.1 (Physcomitrella patens), 3'ss of exon 1
gatttggtccgatcgggtgtgggatttcagaaat-cgacagccttttcccgtcagacaggcaggtcctgactacgctgttctt----------ttgcttgatccgatgcagGCATGGGCGCAGCGTACGGGACCGCGAAGAGCGGCGTCGGCGTGGCGTCGATGGGTGTGATGCGGCCGGAGCTCGTCATGAAGTCCATCGTGCCCGTGGT
            | | ||    |||||      | |       |||||   |  |    |    |    ||| |   |    |          | | | | |  ||| ||||||||||||| || || || || || ||||| || || || ||||| || ||||||||||||||||| ||| | || ||||| || |||||||| || ||
-----------gtagcgtacaagattttcaccgtgcagtttaattttcttatttggagcgtgattttgaacttcctggactctgacaaagcggtggttggttttgattcagGCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCATGGGTGTGATGCGGCCAGAGTTGGTGATGAAATCTATCGTGCCAGTAGT

upper sequence: AC216067.3_FGT002 (Zea mays), 3'ss of exon 1
lower sequence: PP1S45_97V6.1 (Physcomitrella patens), 3'ss of exon 1
gatttggtccgatcgggtgtgggatttcagaaatcgacagccttttcccgt---cagacaggcaggtcctgactacgc-tgttcttttgcttgatccgatgc--agGCATGGGCGCAGCGTACGGGACCGCGAAGAGCGGCGTCGGCGTGGCGTCGATGGGTGTGATGCGGCCGGAGCTCGTCATGAAGTCCATCGTGCCCGTGGT
       |   | ||    ||||    |     ||||  ||||  ||  |      | |  | |  ||||   || |  |    |  ||   | |     ||  |||||||||||| || || || || || ||||| || || || ||||| || ||||||||||||||||| ||||| || |||||||| ||||| || |||||
------ataacagcgatgttgggcaccccactttcgagtgcctcatctaggatatggcctcgaaattcctagatatgaataaaatggtgaaggtttttgcgcgcagGCATGGGCGCTGCATATGGAACAGCCAAGAGTGGAGTGGGAGTGGCATCCATGGGTGTGATGCGGCCCGAGCTGGTGATGAAGTCGATCGTACCAGTGGT

upper sequence: AC216067.3_FGT002 (Zea mays), 3'ss of exon 1
lower sequence: PP1S200_79V6.1 (Physcomitrella patens), 3'ss of exon 1
gatttggtccgatcgggtgtgggatttcagaaatcgacagccttttcccgt---cagacaggcaggtcctgactacgctgttctt-ttgcttgatccgatg-cagGCATGGGCGCAGCGTACGGGACCGCGAAGAGCGGCGTCGGCGTGGCGTCGATGGGTGTGATGCGGCCGGAGCTCGTCATGAAGTCCATCGTGCCCGTGGT
          || |||   ||||   | |    || |   |||   |  |    |      | |  |||||   | |   |   | |||  || |     | ||||||||||||| || || ||||| || ||||| || || || ||||| || ||||||||||||||||| ||||| || |||||||| |||||||| |||||
-----cccgtgaacggtgttgggcacttaagcttcaatttcctcagctagggtgcgacttcgaaactcctggacatgaactaaatgttgaatgttattgcgtcagGCATGGGCGCTGCTTATGGGACAGCCAAGAGTGGAGTGGGAGTGGCATCCATGGGTGTGATGCGGCCCGAGCTGGTGATGAAGTCGATCGTGCCTGTGGT

upper sequence: AC216067.3_FGT002 (Zea mays), 3'ss of exon 1
lower sequence: EFJ33972 (Selaginella moellendorffii), 3'ss of exon 1
gatttggtccgatcgggtgtgggatttcagaaatcgacagccttttcccgtcagacaggcaggtcctgactacgctgttcttttgcttgatccgatgcagGCATGGGCGCAGCGTACGGGACCGCGAAGAGCGGCGTCGGCGTGGCGTCGATGGGTGTGATGCGGCCGGAGCTCGTCATGAAGTCCATCGTGCCCGTGGT
                              ||  |     | ||||||  |  ||          || |   |||  | |  | | |  |||   | |||||||||| || || || || || || ||||||||||| ||||||||||| ||||| || ||| | ||||||||||| ||||| || ||||| || |||||
----------------------------gtaagccagattctttttcctctttgat---------ctaat--cgcaatgcgatggatcaatcgattacagGCATGGGAGCTGCCTATGGCACTGCCAAGAGCGGCGTGGGCGTGGCGTCCATGGGCGTCATGAGACCGGAGCTCGTGATGAAATCGATCGTCCCGGTGGT

upper sequence: AC216067.3_FGT002 (Zea mays), 3'ss of exon 1
lower sequence: EFJ14420 (Selaginella moellendorffii), 3'ss of exon 1
-------------------------------------------------------------------------------gatttggtccga-tcgggtgtgggatttcagaaatcgacagccttttcccg--tcagacaggcaggtcctgac-tacgctgttcttttgcttgatc--cgatgcagGCATGGGCGCAGCGTACGGGACCGCGAAGAGCGGCGTCGGCGTGGCGTCGATGGGTGTGATGCGGCCGGAGCTCGTCATGAAGTCCATCGTGCCCGTGGT
                                                                               |  |  |   |   |  |  |  |  |||      |||   ||||  | |    | || |    | |||  |  | | |  || | ||     ||   |  |||||||||||| || || || || ||||| ||||| || || || ||||| || ||||| |||||||||||||||||||| ||||| || |||||||| |||||
gtaagttcttgcctctcaccgccatggctggactggatctagggttgtggtgcgtgtctcggctgcgcggcattgcaatgcctgagcttgggccatggattcgccttcctgcg-cgatttccttgccacaatcccgagatttcgatcccaaaattccccattttcttatggaattttctttgcagGCATGGGAGCTGCCTATGGAACCGCAAAGAGTGGTGTTGGAGTGGCATCCATGGGCGTGATGCGGCCGGAGCTCGTGATGAAATCGATCGTGCCAGTGGT

upper sequence: AC216067.3_FGT002 (Zea mays), 3'ss of exon 1
lower sequence: EFJ26016 (Selaginella moellendorffii), 3'ss of exon 1
-------------------------------------------------------------------------------gatttggtccga-tcgggtgtgggatttcagaaatcgacagccttttcccg--tcagacaggcaggtcctgac-tacgctgttcttttgcttgatc--cgatgcagGCATGGGCGCAGCGTACGGGACCGCGAAGAGCGGCGTCGGCGTGGCGTCGATGGGTGTGATGCGGCCGGAGCTCGTCATGAAGTCCATCGTGCCCGTGGT
                                                                               |  |  |   |   |  |  |  |  |||      |||   ||||  | |    | || |    | |||  |  | | |  || | |      ||   |  |||||||||||| || || || || ||||| ||||| || || || |||||||| ||||| |||||||||||||||||||| ||||| || |||||||| |||||
gtaagttcttgcctctcaccgccatggctggactggatctagggttgtggtgcgtgtctcggctgcgcggcattgcaatgcctgagcttgggccatggattcgccttcctgcg-cgatttccttgccacaatcccgatatttcgatcccaaaattccccattttctcatggaattttctttgcagGCATGGGAGCTGCCTATGGAACCGCAAAGAGTGGTGTTGGAGTGGCGTCCATGGGCGTGATGCGGCCGGAGCTCGTGATGAAATCGATCGTGCCAGTGGT

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|20301437|gb|BQ164380.1|BQ164380
EST:     GGCCCCCTTCTTCGGTTTCCTCGGCGCCGCCGCCGCCCTCGTCTTCTCAT                         GCATGGGCGCAGCGTACGGGACCGCGAAGAGCGGCGTCGGCGTGGCGTCGA
genomic: GGCCCCCTTCTTCGGTTTCCTCGGCGCCGCCGCCGCCCTCGTCTTCTCATgttcgtcccg ... tccgatgcagGCATGGGCGCAGCGTACGGGACCGCGAAGAGCGGCGTCGGCGTGGCGTCGA
EST: gi|33102071|gb|CF062031.1|CF062031
EST:     GGCCCCCTTCTTCGGTTTCCTCGGCGCCGCCGCCGCCCTCGTCTTCTCAT                         GCATGGGCGCAGCGTACGGGACCGCGAAGAGCGGCGTCGGCGTGGCGTCGA
genomic: GGCCCCCTTCTTCGGTTTCCTCGGCGCCGCCGCCGCCCTCGTCTTCTCATgttcgtcccg ... tccgatgcagGCATGGGCGCAGCGTACGGGACCGCGAAGAGCGGCGTCGGCGTGGCGTCGA

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 4 RNA-Seq libraries.


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 379

ATGTCGTCGGTGTTCAGCGGCGATGAGACGGCCCCCTTCTTCGGTTTCCTCGGCGCCGCCGCCGCCCTCGTCTTCTCATgttcgtcccg ... tccgatgcagGCATGGGCGCAGCGTACGGGACCGCGAAGAGCGGCGTCGGCGTGGCGTCGATGGGTGTGATGCGGCCGGAGCTCGTCATGAAGTCCATCGTGCCCGTGGT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 650

ATGTCGTCGGTGTTCAGCGGCGATGAGACGGCCCCCTTCTTCGGTTTCCTCGGCGCCGCCGCCGCCCTCGTCTTCTCATgttcgtcccg ... tccgatgcagGCATGGGCGCAGCGTACGGGACCGCGAAGAGCGGCGTCGGCGTGGCGTCGATGGGTGTGATGCGGCCGGAGCTCGTCATGAAGTCCATCGTGCCCGTGGT


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 608

ATGTCGTCGGTGTTCAGCGGCGATGAGACGGCCCCCTTCTTCGGTTTCCTCGGCGCCGCCGCCGCCCTCGTCTTCTCATgttcgtcccg ... tccgatgcagGCATGGGCGCAGCGTACGGGACCGCGAAGAGCGGCGTCGGCGTGGCGTCGATGGGTGTGATGCGGCCGGAGCTCGTCATGAAGTCCATCGTGCCCGTGGT


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 577

ATGTCGTCGGTGTTCAGCGGCGATGAGACGGCCCCCTTCTTCGGTTTCCTCGGCGCCGCCGCCGCCCTCGTCTTCTCATgttcgtcccg ... tccgatgcagGCATGGGCGCAGCGTACGGGACCGCGAAGAGCGGCGTCGGCGTGGCGTCGATGGGTGTGATGCGGCCGGAGCTCGTCATGAAGTCCATCGTGCCCGTGGT




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcccgtcagacaggcaggtcctgactacgctgttcttttgcttgatccgatgcagGCATGGGCGCAGCGTACGGGACCGCGAAGAGCGGCGTCGGCGTGGCGTCGATGGGTGTGATGCGGCCGGAGCTCGTCATGAAGTCCATCGTGCCCGTGGT
                                ttctttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gatttggtccgatcgggtgtgggatttcagaaatcgacagccttttcccgtcagacaggcaggtcctgactacgctgttcttttgcttgatccgatgcagGCATGGGCGCAGCGTACGGGACCGCGAAGAGCGGCGTCGGCGTGGCGTCGATGGGTGTGATGCGGCCGGAGCTCGTCATGAAGTCCATCGTGCCCGTGGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - acaggca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggtcctg