Sequence
atgc intronic sequence ATGC exonic sequence...agcaaaacaccaccgagtaaattggctggtatggagagtcatgagctccatgtctacatgtggtttcagttaattatatttagatttcattgaattacagATATGGAAGAGAAAGTTCAAAACATGCTTAAACTCATTCAGGAGGATGGAGACTCATTTGCCAAGAGGGCAGAAATGTATTACAAGAGAAGGCCAGAGCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0483g00050.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA18G29480.1 (Glycine max), 3'ss of exon 2
agcaaaacaccaccgagtaaattggctggtatggagagtcatgagctccatgtctacatgtggtttcagttaattatatttagatttcattgaattacagATATGGAAGAGAAAGTTCAAAACATGCTTAAACTCATTCAGGAGGATGGAGACTCATTTGCCAAGAGGGCAGAAATGTATTACAAGAGAAGGCCAGAGCT
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----------------------------------------gtatgtaatatatctgtgtact-tgtca--tactaaaatctaaaagGAA---AACTGCAGATATGGAGGAAAAGGTGCACACTGTTTTAAAGCTCCTAGAGGAAGAGGGAGACTCATTTGCCAAGAGAGCAGAAATGTATTACAAAAGG-----------
upper sequence: Vv00s0483g00050.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA09G33200.1 (Glycine max), 3'ss of exon 1
---agcaaaacaccaccgagtaaattggctggtatggagagtcatgagc-tccatgtctacatgtggtttcagttaattatatttagatttcattgaattacagATATGGAAGAGAAAGTTCAAAACATGCTTAAACTCATTCAGGAGGATGGAGACTCATTTGCCAAGAGGGCAGAAATGTATTACAAGAGAAGGCCAGAGCT
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atcacatggagatgcccgtgtaagatcaacataacccacttgtatgtgcctttatacatgcatatagct--ggctaactaaaataaa--tgaacaaaactgcagATATGGAGGAAAAAGTGCAAACCGTTTTGAAGCTCTTAGAGGAAGAGGGGGACTCTTTTGCCAAGAGAGCAGAAATGTATTACAAAAGGAGACCGGAACT
upper sequence: Vv00s0483g00050.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA01G02810.1 (Glycine max), 3'ss of exon 1
---agcaaaacaccaccgagtaaattggctggtatggagagtcatgagc-tccatgtctacatgtggtttcagttaattatatttagatttcattgaattacagATATGGAAGAGAAAGTTCAAAACATGCTTAAACTCATTCAGGAGGATGGAGACTCATTTGCCAAGAGGGCAGAAATGTATTACAAGAGAAGGCCAGAGCT
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atcacatggagatgcctgtgtaagatcaacataacccacttgtatgtgcctttatacatgcatatagct--ggcaaactaaaataaa--tgaacaaaactgcagATATGGAGGAAAAAGTGCAAACTGTTTTGAAGCTCTTAGAGGAAGAGGGAGACTCTTTTGCTAAGAGAGCAGAAATGTATTACAAAAGGAGACCGGAACT
upper sequence: Vv00s0483g00050.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA12G16690.1 (Glycine max), 3'ss of exon 1
---agcaaaacaccaccgagtaaattggctggtatggagagtcatgagc-tccatgtctacatgtggtttcagttaattatatttagatttcattgaattacagATATGGAAGAGAAAGTTCAAAACATGCTTAAACTCATTCAGGAGGATGGAGACTCATTTGCCAAGAGGGCAGAAATGTATTACAAGAGAAGGCCAGAGCT
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atcacatggagatgcatgtgtaagatcaacataacccacttgtatgtgcctttatacatgcatatagct--agaaaactaaaataaa--tgaacaaaactgcagATATGGAGGAAAAAGTGCAAACTGTTTTGAAGCTCTTAGAGGAAGAGGGAGACTCTTTTGCCAAGAGAGCAGAAATGTGTTACAAAAGGAGACCGGAACT
upper sequence: Vv00s0483g00050.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G10500.1 (Arabidopsis thaliana), 3'ss of exon 1
agcaaaacaccaccgagtaaattggctggtatggagagtcatgagctccatgtctacatgtggtttcagttaattatatttagatttcattgaat-----tacagATATGGAAGAGAAAGTTCAAAACATGCTTAAACTCATTCAGGAGGATGGAGACTCATTTGCCAAGAGGGCAGAAATGTATTACAAGAGAAGGCCAGAGCT
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----------------------------gt-tacatatttttacattccatattatcatcatttttcacttc-ttccacatatttttgataaaatgtttatgtagATATCGAGGAGAAGGTGGAATATGCACTTAAGCTTTTGGAAGATGAAGGTGATTCATTTGCTAAGCGTGCAGAAATGTATTACAAGAGAAGGCCTGAATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctccatgtctacatgtggtttcagttaattatatttagatttcattgaattacagATATGGAAGAGAAAGTTCAAAACATGCTTAAACTCATTCAGGAGGATGGAGACTCATTTGCCAAGAGGGCAGAAATGTATTACAAGAGAAGGCCAGAGCT
agttaat putative branch site (score: 4)
tttcatt putative PPT
tttcagttaattatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agcaaaacaccaccgagtaaattggctggtatggagagtcatgagctccatgtctacatgtggtttcagttaattatatttagatttcattgaattacagATATGGAAGAGAAAGTTCAAAACATGCTTAAACTCATTCAGGAGGATGGAGACTCATTTGCCAAGAGGGCAGAAATGTATTACAAGAGAAGGCCAGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
-gcaaaac
- - - - -ccaccga
- - - - - - - - - - - tggctgg
- - - - - - - - - - - - - - - - - - - -catgagc
- - - - - - - - - - - - - - - - - - - - - - - -ccatgtc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - catgtgg