Sequence
atgc intronic sequence ATGC exonic sequence...tatatcttgttgtttggctatcatgcctacatgattgtttgttctttggttcttgatgtttcccaacttacgtgaatcttgagttttctgaaaatctcagGGAGTCCAATGCAAGAGAGTTGCAAGAAGTATTAACTCTGTGGGTCTTTATGTTCCAGGGGGAACTGCTGTATTACCTTCAACAGCTTTGATGCTTGCAG
Basic information
species | Glycine max |
transcript | GLYMA09G02960.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G02960.1 (Glycine max), 3'ss of exon 4
lower sequence: AT5G63890.1 (Arabidopsis thaliana), 3'ss of exon 4
tatatcttgttgtttggctatcatgcctacatgattgtttgttctttggttcttgatgtttcccaacttacgtgaatcttgagttttctgaaaatctcagGGAGTCCAATGCAAGAGAGTTGCAAGAAGTATTAACTCTGTGGGTCTTTATGTTCCAGGGGGAACTGCTGTATTACCTTCAACAGCTTTGATGCTTGCAG
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--------------------gtaagtcaatttagttacacattac---gttcttaagtcttct----tcacactaatctttagtcgtg-aactttgttagGGTGTCAGATGTAAAAGGGTGTCAAGATCTATTGGCTCTGTAGGTCTTTATGTGCCTGGTGGAACAGCTGTTTTGCCATCAACGGCTTTGATGCTTGCTA
upper sequence: GLYMA09G02960.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv18s0166g00300.t01 (Vitis vinifera), 3'ss of exon 6
tatatcttgttgtttggctatcatgcctacat-gattgtttgttct--ttggttcttgatgtttcccaacttacgtgaatcttgagttttctgaaaatct--cagGGAGTCCAATGCAAGAGAGTTGCAAGAAGTATTAACTCTGTGGGTCTTTATGTTCCAGGGGGAACTGCTGTATTACCTTCAACAGCTTTGATGCTTGCAG
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----------------gtaagcaagagaatattgaatgctaattatggttgattcatcctacttct-agcccatatttactttttctattcctgattttttccagGGTGTTAAATGCAAACGGGTTGCAAGGAGCATTGCTTCTGTTGGTCTTTATGTTCCAGGAGGAACTGCAGTGTTACCTTCAACAGCTCTGATGCTTTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttggttcttgatgtttcccaacttacgtgaatcttgagttttctgaaaatctcagGGAGTCCAATGCAAGAGAGTTGCAAGAAGTATTAACTCTGTGGGTCTTTATGTTCCAGGGGGAACTGCTGTATTACCTTCAACAGCTTTGATGCTTGCAG
aacttac putative branch site (score: 2)
tgaaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatatcttgttgtttggctatcatgcctacatgattgtttgttctttggttcttgatgtttcccaacttacgtgaatcttgagttttctgaaaatctcagGGAGTCCAATGCAAGAGAGTTGCAAGAAGTATTAACTCTGTGGGTCTTTATGTTCCAGGGGGAACTGCTGTATTACCTTCAACAGCTTTGATGCTTGCAG
- - -cttgttg
- - - - - - - - - - -catgcct
- - - - - - - - - - - - - - - - - -tgtttgt
- - - - - - - - - - - - - - - - - - - - - - - - gttcttg