Sequence
atgc intronic sequence ATGC exonic sequencegtaagtcaaagacaacagaaataaggatcttatacagtttgaagagccacattgttctggagttatgactgtgaaagtgattatttattcattttggcagGGGCAAAATTTGGTGGGTATGGTTCATTTTTACCTACTTATCAGCGTTCTCCTGTTTGGTCCCAGCCGAGGACGCCAGCAAAGGTTCAAAACTGCAACAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0104g01600.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os07g47360.1 (Oryza sativa), 3'ss of exon 2
gtaagtcaaagacaacagaaataaggatcttatacagtttgaagagccacattgttctggagttatgactgtgaaagtgattatttattcattttggcagGGGCAAAATTTGGTGGGTATGGTTCATTTTTACCTACTTATCAGCGTTCTCCTGTTTGGTCCCAGCCGAGGACGCCAGCAAAGGTTCAAAACTGCAACAC---
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----------gtgagcagatatgagttgctgacgtagtcattttcactttggtacactatagaga-gacattaaaacaggggattaaaccat---gacagGATCGAAGTTTGGTGGGTATGGTTCATTCTTGCCTACTTACCAGCGTTCTCCGCT---GCCCCAAACTAGAAGTCCACCTAAGGCGGCAAATGTTAGCTCAAG
upper sequence: Vv07s0104g01600.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G117228_T01 (Zea mays), 3'ss of exon 1
--------------------------gtaagtc---aaagacaacagaaataaggatcttatacagtttgaagagccacattgttctggagt-tatgactgtgaaagtgattatt-tattcattttggcagGGGCAAAATTTGGTGGGTATGGTTCATTTTTACCTACTTATCAGCGTTCTCCTGTTTGGTCCCAGCCGAGGACGCCAGCAAAGGTTCAAAACTGCAACAC
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ggacattttcagaaggaattcgaaggagaagtttctgcagagaacctcggtaaagagctaattgttgttgttg-gttagtttcctttgatgcatttggcagGGATGTTAAGCAGGGCACAATCTTTGACAGGGTCGAAATTTGGTGGATATGGTTCATTTTTACCCACATATCAGCGTTCTCCCCTGCTGCCCCAATCTGA------------------------------
upper sequence: Vv07s0104g01600.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G144971_T02 (Zea mays), 3'ss of exon 2
gtaagtcaaagacaacagaaataaggatcttatacagtttgaagagccacattgttctggagttatgactgtgaaagtgattatttattcattttggcagGGGCAAAATTTGGTGGGTATGGTTCATTTTTACCTACTTATCAGCGTTCTCCTGTTTGGTCCCAGCCGAGGACGCCAGCAAAGGTTCAAAACTGCAACAC---
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-------------gtggggagttgctgtatcagcttgatttgggttcattatagctaaaca-ttattacattaagcagaact--ttaatc--tttgacagGGTCCAAATTTGGTGGATATGGTTCATTTTTACCTACGTACCAGCGCTCCCCTCTCC---CCCAAACTAGAAGTCCACTTAAGGCAGCAAATGCTACCTCAAA
upper sequence: Vv07s0104g01600.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G171068_T02 (Zea mays), 3'ss of exon 2
gtaagtcaaagacaacagaaataaggatcttatac-agtttgaagagccacattgttctggagttatgactgtgaaagtgattatttattcattttggcagGGGCAAAATTTGGTGGGTATGGTTCATTTTTACCTACTTATCAGCGTTCTCCTGTTTGGTCCCAGCCGAGGACGCCAGCAAAGGTTCAAAACTGCAACAC---
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--------gtgtggatatgtgaacagttgctgtaccagcttgatt--ttgtttcattctaga----taagcattaagcagaacttaaatc---tttgacagGGTCAAAATTTGGTGCATATGGTTCATTTTTGCCTACGTACCAGCGCTCTCCTCTTC---CTCAAACTAGAAGTCCCCCTAAGGCAGGAAATATTACCTCAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gccacattgttctggagttatgactgtgaaagtgattatttattcattttggcagGGGCAAAATTTGGTGGGTATGGTTCATTTTTACCTACTTATCAGCGTTCTCCTGTTTGGTCCCAGCCGAGGACGCCAGCAAAGGTTCAAAACTGCAACAC
ttcatttt CT-rich tract
aaagtgattatttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtcaaagacaacagaaataaggatcttatacagtttgaagagccacattgttctggagttatgactgtgaaagtgattatttattcattttggcagGGGCAAAATTTGGTGGGTATGGTTCATTTTTACCTACTTATCAGCGTTCTCCTGTTTGGTCCCAGCCGAGGACGCCAGCAAAGGTTCAAAACTGCAACAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG