Sequence
atgc intronic sequence ATGC exonic sequencegtgagtgcttcaaatgtggtttctttaatgatttcttatgtattctgtccatgagcatgacatagaaagtacaactgacatgtgttttcagGGTGCTAGGGCACAGAGAGTAGAATATCTTCTATTGCATGAGTTCCATGCAAAGAAGTATATTGTCCCAGATAAGATTTCTTCTCATTTGAGGGAAACAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0031g00470.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GRMZM2G149802_T02 (Zea mays), 3'ss of exon 12
gtgagtgcttcaaatgtggtttctttaatgatttcttatgtattctgtccatgagcatgacatagaaagtacaactgacatgtgttttcagGGTGCTAGGGCACAGAGAGTAGAATATCTTCTATTGCATGAGTTCCATGCAAAGAAGTATATTGTCCCAGATAAGATTTCTTCTCATTTGAGGGAAACAA-
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gtaacagtcactattatcatgcatattgtg--tagttaactaggaagtcgtgcatcttgacgtcatatct-caaatgaaatttcctgt-agGGTGCTAGGGCTCAGAGGGTAGAATATCTACTACTGCATTCATTCCATGCAAGAAAATTTATTGCACCAGATAA-ATTTGCACGCAACAAAGAGCTGAACT
upper sequence: Vv07s0031g00470.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: PP1S257_37V6.1 (Physcomitrella patens), 3'ss of exon 15
-----------------------gtgagtgcttcaaatgtggtttctttaatgatttcttatgtattctgtccatgag--catgacata--gaaagtacaact--gacatgtgttttcagGGTGCTAGGGCACAGAGAGTAGAATATCTTCTATTGCATGAGTTCCATGCAAAGAAGTATATTGTCCCAGATAAGATTTCTTCTCATTTGAGGGAAACAA
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gtatggtgctttgcaaaatttgaatccgatttttcaaagtaaaatccttag-gatttcatctgcact-tgaggatgaatccatgtcttcttgataatagaacatggggatatttttgtagGGAGCTAGGGCACAGAGAGTGGAATATCTTCTACTACACGAGTTCCATATTCGAAAGTTCATACTTCCTGATAAGCTATCCCAAAAGGAGAAGGAGAAGG
upper sequence: Vv07s0031g00470.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: EFJ25004 (Selaginella moellendorffii), 3'ss of exon 14
gtgagtgcttcaaatgtggtttctttaatgatttcttatgtattctgtccatgagcatgacatagaaagtacaactgacatgtgttttcagGGTGCTAGGGCACAGAGAGTAGAATATCTTCTATTGCATGAGTTCCATGCAAAGAAGTATATTGTCCCAGATAAGATTTCTTCTCATTTGAGGGAAACAA
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--------------------------gtaagttacagatgccaactg-ccattcttatctcatgttatgaacaac--------------agGGTGCAAGGGCACAAAGAGTTGAATATCTGCTCTTGCATGAGTTTTATGGACGTAAATATATTGTTCCTGACAAAGTATCTGCTAGTGAAAAAGAGAAAG
upper sequence: Vv07s0031g00470.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: EFJ15342 (Selaginella moellendorffii), 3'ss of exon 14
gtgagtgcttcaaatgtggtttctttaatgatttcttatgtattctgtccatgagca-tgacatagaaagtacaactgacatgtgttttcagGGTGCTAGGGCACAGAGAGTAGAATATCTTCTATTGCATGAGTTCCATGCAAAGAAGTATATTGTCCCAGATAAGATTTCTTCTCATTTGAGGGAAACAA
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---------------------------------------gtaagttacagatgacaactgccattcttatctca--tgttatg-aacaacagGGTGCAAGGGCACAAAGAGTTGAATATCTGCTCTTGCATGAGTTTTATGGACGTAAATATATTGTTCCTGACAAAGTATCTGCTAGTGAAAAAGAGAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatgtattctgtccatgagcatgacatagaaagtacaactgacatgtgttttcagGGTGCTAGGGCACAGAGAGTAGAATATCTTCTATTGCATGAGTTCCATGCAAAGAAGTATATTGTCCCAGATAAGATTTCTTCTCATTTGAGGGAAACAA
aactgac putative branch site (score: 2)
tgttttc putative PPT
atagaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtgcttcaaatgtggtttctttaatgatttcttatgtattctgtccatgagcatgacatagaaagtacaactgacatgtgttttcagGGTGCTAGGGCACAGAGAGTAGAATATCTTCTATTGCATGAGTTCCATGCAAAGAAGTATATTGTCCCAGATAAGATTTCTTCTCATTTGAGGGAAACAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT