Sequence
atgc intronic sequence ATGC exonic sequencegtcgctataactttgtttaagttttcctttcaactgtttttgtggctgcaagtatatgtcttttttcgctacgtgtactgattccatagcttgattgaaaaccagGGAACTATAGCACATGCTTTAGAGAAGACCAAGTATGAAGACTCAGATGTCAAGTGGAAAGAGTTGGACCCCAAGTACCACTTCTCGTGTCAATTCATGG
Basic information
species | Glycine max |
transcript | GLYMA02G40740.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G40740.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G060659_T01 (Zea mays), 3'ss of exon 8
gtcgctataactttgtttaagttttc--ctttcaactgtttttgtggctgcaagtatatgtcttttttcgctacgtgtactgattccatagcttgattgaaaaccagGGAACTATAGCACATGCTTTAGAGAAGACCAAGTATGAAGACTCAGATGTCAAGTGGAAAGAGTTGGACCCCAAGTACCACTTCTCGTGTCAATTCATGG
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---------------gtgaagtgatgggccatcaagtagagtcttgaaagattgattac-tttttttttgctagtatgacacagaagatgatcttattga----cagGGGACAATCGCGCACGCTCTAGAGAAGACAAAGTATGAAGATTCAGATGTGAAGTGGAGAGATCTGGATCAGAAGTACCATTTCTCCTGCCAATTCACTG
upper sequence: GLYMA02G40740.1 (Glycine max), 3'ss of exon 8
lower sequence: AT5G37180.1 (Arabidopsis thaliana), 3'ss of exon 7
gtcgctataactttgtttaagttttcctttcaactgtttttgtggctgcaagtatatgtcttttttcgctacgtgtactgattccatagcttgattgaaaacc-agGGAACTATAGCACATGCTTTAGAGAAGACCAAGTATGAAGACTCAGATGTCAAGTGGAAAGAGTTGGACCCCAAGTACCACTTCTCGTGTCAATTCATGG
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-----------gttctttacctttttactttgg-taaatttagaccaataaattactcattcttatgtcgaaacaaatttattgaaatgaaagaaaaaaaatctagGCAACTATTGCACATGCCTTGGAGAAGACTAAATATGAAGATTCAGATATCAAGTGGAAAGAGTTTGATCCTAAATATCATTTCTCATCTCAATTTACGG
upper sequence: GLYMA02G40740.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv04s0079g00230.t01 (Vitis vinifera), 3'ss of exon 8
gtcgctataactttgtttaagttttcctttcaactgtttttgtggctgcaagtata-tgtcttttttcgctacgtgtactgattccatagcttgattgaaaaccagGGAACTATAGCACATGCTTTAGAGAAGACCAAGTATGAAGACTCAGATGTCAAGTGGAAAGAGTTGGACCCCAAGTACCACTTCTCGTGTCAATTCATGG
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----------gtgtttttactcattagtggtagatagttt-gctactaaatataaactgtcttcttgctagctacttactaatc---taaaatgccctgaaactagGGAACTATTGCACATGCCTTAGAGAAGACTAAGTACGAAGATTCGGATGTCAAATGGAAGGAATTAGAGCCCAAATATCATTTCTCATGCCAATTTACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtatatgtcttttttcgctacgtgtactgattccatagcttgattgaaaaccagGGAACTATAGCACATGCTTTAGAGAAGACCAAGTATGAAGACTCAGATGTCAAGTGGAAAGAGTTGGACCCCAAGTACCACTTCTCGTGTCAATTCATGG
tctttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcgctataactttgtttaagttttcctttcaactgtttttgtggctgcaagtatatgtcttttttcgctacgtgtactgattccatagcttgattgaaaaccagGGAACTATAGCACATGCTTTAGAGAAGACCAAGTATGAAGACTCAGATGTCAAGTGGAAAGAGTTGGACCCCAAGTACCACTTCTCGTGTCAATTCATGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA