Sequence
atgc intronic sequence ATGC exonic sequence...cagtgaagggaaggtggcccctcccacattgacagattcagtaggaccttccggaaattgagcaataaacctatggtttcttcatgattaatttgtttagGTTCAAGAGTGTTATGAGCTTTCTGCTGAGTACGAAGGAAAACACGACCCCAAGAAGTTGGAGGAACTTGGAAATGTGTTGACGAGTTTGGATGCAGGGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0014g01390.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA06G33380.1 (Glycine max), 3'ss of exon 1
cagtgaagggaaggtggcccctcccacat-tgaca-gattcagtaggaccttccggaaat-tgagcaataaacctatggtttcttcatgattaatttgttt------agGTTCAAGAGTGTTATGAGCTTTCTGCTGAGTACGAAGGAAAACACGACCCCAAGAAGTTGGAGGAACTTGGAAATGTGTTGACGAGTTTGGATGCAGGGG
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---------gttggccttaacttgtatatacgatgtgcctttgcatttttctttaaaattatgagccagaaaaatgttttatgctgatgcttaatttgttcttgcacagGTTCAAGAGGTGTATGAGCTTTCTGCTGAGTATGAAGGGAAACATGACCCAAAGAAACTGGAGGAACTTGGAAATCTGATAACTAGTTTGGATGCTGGAG
upper sequence: Vv19s0014g01390.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA20G09810.1 (Glycine max), 3'ss of exon 2
cagtgaagggaaggtggcccct-cccacattgacagattcagtaggaccttccggaaat-tgagcaataaacctatggtttcttcatgattaatttgttt------agGTTCAAGAGTGTTATGAGCTTTCTGCTGAGTACGAAGGAAAACACGACCCCAAGAAGTTGGAGGAACTTGGAAATGTGTTGACGAGTTTGGATGCAGGGG
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--------cggacttaacttatatataccatgcgcctttgcatttttctctttgaaattatgaatcagaaaactgttttgtgctggtgcttaatttgttcttgcacagGTTCAAGAGGTGTATGAGCTTTCTGCTGAGTATGAAGGTAAGCATGACCCAAAGAAACTAGAGGAACTTGGAAATCTGATAACTAGTTTGGATGCTGGAG
upper sequence: Vv19s0014g01390.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA12G35840.1 (Glycine max), 3'ss of exon 1
----cagtgaagggaaggtggcccctcccacattgacagattcagtaggaccttccggaaattgagcaataaacctatggtttcttcatgattaatttgtttagGTTCAAGAGTGTTATGAGCTTTCTGCTGAGTACGAAGGAAAACACGACCCCAAGAAGTTGGAGGAACTTGGAAATGTGTTGACGAGTTTGGATGCAGGGG
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aatatactggatattatgtgttcttgcatttctctttgacttttatgag-ctggaaaactgtttcgcagtgatggttaagaacttaaatgttc---ttgtgcagGTTCAAGAAGTGTATGAACTTTCAGCTGAGTATGAAGGAAAGCATGACCCTAAGAAACTGGAAGAACTTGGAAATTTGATAACCAGTTTGGATGCTGGGG
upper sequence: Vv19s0014g01390.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA13G34560.1 (Glycine max), 3'ss of exon 2
----cagtgaagggaaggtggcccctcccacattgacagattcagtaggaccttccggaaattgagcaataaacctatggtttcttcatgattaatttgtttagGTTCAAGAGTGTTATGAGCTTTCTGCTGAGTACGAAGGAAAACACGACCCCAAGAAGTTGGAGGAACTTGGAAATGTGTTGACGAGTTTGGATGCAGGGG
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aatatactggattttatgtgttcttgcattcctctttgacttttat-gaactggaaaactgtttcgcagtgatgttaagaacataaaatgttc---ttgtgcagGTCCAAGAAGTATATGAACTTTCAGCTGAGTATGAAGGAAAGCATGACCCTAAGAAACTGGAAGAACTTGGAAATTTGATAACCAGTTTGGATGCTGGGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.accttccggaaattgagcaataaacctatggtttcttcatgattaatttgtttagGTTCAAGAGTGTTATGAGCTTTCTGCTGAGTACGAAGGAAAACACGACCCCAAGAAGTTGGAGGAACTTGGAAATGTGTTGACGAGTTTGGATGCAGGGG
gattaat putative branch site (score: 3)
tttgttt CT-rich tract
atgattaatttgttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cagtgaagggaaggtggcccctcccacattgacagattcagtaggaccttccggaaattgagcaataaacctatggtttcttcatgattaatttgtttagGTTCAAGAGTGTTATGAGCTTTCTGCTGAGTACGAAGGAAAACACGACCCCAAGAAGTTGGAGGAACTTGGAAATGTGTTGACGAGTTTGGATGCAGGGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - -aagggaa
- - - - - - - - - ccctccc
- - - - - - - - - - - - - cattgac
- - - - - - - - - - - - - - - - - - - - - - - ccttccg
- - - - - - - - - - - - - - - - - - - - - - - - - - - aaattga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaccta