Sequence
atgc intronic sequence ATGC exonic sequence...ttactgtgatcttgcaggctggctgttaattttttgaatgaggacttgtcatatcactttttatggttggaaactaatgcatagttcctcacactcacagGTTGTCAGAGATAAGCGGACAGGAAAAACCAGGGGCTATGGATTTGTTAGCTTTTCCAACCCTTTAGACCTTGCAGCAGCACTTAAGGAAATGAACG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0036g00630.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G068255_T01 (Zea mays), 3'ss of exon 2
ttactgtgatcttgcaggctggctgttaattttttgaatgaggacttgtcatatcactttttatggttggaaactaatgcatagttcctcacactca----cagGTTGTCAGAGATAAGCGGACAGGAAAAACCAGGGGCTATGGATTTGTTAGCTTTTCCAACCCTTTAGACCTTGCAGCAGCACTTAAGGAAATGAACG
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--tctataagtagtgaggctta-tgtcagtcattgcgtgcagcacttggcatg-cattttttgattctatacattcttaatttgcctcgtactctttatttcagGTTGTTAGAGATAAGAGGACTGGCAAAACTAAAGGCTATGGATTTGTGAGCTTTTCAAACCCTACTGATCTGGCTGCAGCAATAAAAGAGATGAATG
upper sequence: Vv14s0036g00630.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA20G36570.1 (Glycine max), 3'ss of exon 3
------ttactgtgatcttgcaggctggctgttaattttttgaatgaggacttgtcatatcactttttatggttggaaactaatgcatagttcctcacactcacagGTTGTCAGAGATAAGCGGACAGGAAAAACCAGGGGCTATGGATTTGTTAGCTTTTCCAACCCTTTAGACCTTGCAGCAGCACTTAAGGAAATGAACG
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ctaagcaaacttaacttttattatttatgtgtttgtggtgcatgtatttccttgtgatgtg--ttgacagtgttgtga-ttaaggtatgtttatcttgact---agGTTGTCAGAGACAAGCGGACTGGTAAAACAAAAGGTTATGGATTTGTGAGCTTTGCCAATCCTTCTGACCTTGCTGCTGCTCTTAAAGAAATGAATG
upper sequence: Vv14s0036g00630.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA10G30900.2 (Glycine max), 3'ss of exon 3
ttactgtgatcttgcaggctggctgttaattttttg-aatgaggacttgtcatatcactt--tttatggt-tggaaactaatgcatagttcctcacactcacagGTTGTCAGAGATAAGCGGACAGGAAAAACCAGGGGCTATGGATTTGTTAGCTTTTCCAACCCTTTAGACCTTGCAGCAGCACTTAAGGAAATGAACG
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ctaa-acaaacttaacgtttattatttaagtgtttgtggtgcatgtatttccttgtaatgagttgacagtgttgtgattaaggtatgtttatcttgact---agGTTGTCAGAGACAAGCGGACTGGTAAAACAAAAGGTTATGGATTTGTGAGCTTTGCCAATCCTTCTGACCTTGCTGGTGCTCTTAAAGAAATGAATG
upper sequence: Vv14s0036g00630.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G01300.1 (Glycine max), 3'ss of exon 3
---------------------------------------------------------ttactgtga---tcttgcaggctggctgttaattttttgaatga-ggacttgtcatatcactttttatggttggaaactaa-----tgcatagttcctcacactcac--------------agGTTGTCAGAGATAAGCGGACAGGAAAAACCAGGGGCTATGGATTTGTTAGCTTTTCCAACCCTTTAGACCTTGCAGCAGCACTTAAGGAAATGAACG
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gtaagtggattactcatctagctcaaatgatttttatgtttaggaatgattgtggtgcttctgtgagcatttttctatttcctcttcagatttttgtttgaagggacagagttgttaatatttgtgtatcttaacgtaggtcttgcttaatgacctgaagttatgtttgatcttgtctagGTTGTCAGAGATAAACGGACTGGTAAAACAAAAGGTTATGGATTTGTGAGCTTTGCCAATCCTGCTGACCTTGCTGCTGCTGTTAAAGAAATGAATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgtcatatcactttttatggttggaaactaatgcatagttcctcacactcacagGTTGTCAGAGATAAGCGGACAGGAAAAACCAGGGGCTATGGATTTGTTAGCTTTTCCAACCCTTTAGACCTTGCAGCAGCACTTAAGGAAATGAACG
tcctcac putative branch site (score: 2)
ttcctcac CT-rich tract
atatcactttttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttactgtgatcttgcaggctggctgttaattttttgaatgaggacttgtcatatcactttttatggttggaaactaatgcatagttcctcacactcacagGTTGTCAGAGATAAGCGGACAGGAAAAACCAGGGGCTATGGATTTGTTAGCTTTTCCAACCCTTTAGACCTTGCAGCAGCACTTAAGGAAATGAACG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - -gcaggct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaactaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcatag