Sequence
atgc intronic sequence ATGC exonic sequencegtgagtatgtaacaattctccttttttttcacatgttggaattggcattaatgccaaggtcaaatttaacttcacagccctctaaaccaattttttttttgaaaaaaaagaacccaagagttatgaaaacgactaatgacactaatatctatcttttgtctttttctattcttttccctcattagtagCATGACTATTTCATCTGAAGAATGCACCATGCTAGACATAGATGTAGTGCAACGAATTGTGGAATACTTCTTGATGCATGAACAACAGCAGATTCAACAG
Basic information
species | Glycine max |
transcript | GLYMA05G31220.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G31220.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv00s1395g00010.t01 (Vitis vinifera), 3'ss of exon 3
gtgagtatgtaacaattctccttttttttcacatgttggaattggcattaatgccaaggtcaaatttaacttcacagccctctaaaccaattttttttttgaaaaaaaagaacccaagagttatgaaaacgactaatgacactaatatctatc--ttttgtctttttctattcttttccctcattagtagCATGACTAT--TTCATCTGAAGAATGCACCATGCTAGACATAGATGTAGTGCAACGAATTGTGGAATACTTCTTGATGCATGAACAACAGCAGATTCAACAG---------
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-----------------------------------------------------------gtaagttttctaccttctctttcttagtagattgtttgaactggcataacaatccagataggaactccccgtatacaagattcta-taacaatcaatattgctaatttgcatccttgtcaatttccactatgaccaatatagTTCATCGGAAGAACTCACAATGCACGACATAGATGCGGTGCAAAGGATTGTGGAATACTTCTTGATGCATGAGCAGCAGCAACCGCACCAACACAAGTCT
upper sequence: GLYMA05G31220.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv00s0665g00050.t01 (Vitis vinifera), 3'ss of exon 3
gtgagtatgtaacaattctccttttttttcacatgttggaattggcattaatgccaaggtcaaatttaacttcacagccctctaaaccaattttttttttgaaaaaaaagaacccaagagttatgaaaacgactaatgacactaatatctatc--ttttgtctttttctattcttttccctcattagtagCATGACTAT--TTCATCTGAAGAATGCACCATGCTAGACATAGATGTAGTGCAACGAATTGTGGAATACTTCTTGATGCATGAACAACAGCAGATTCAACAG---------
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----------------------------------------------------------gtaagtttt--ctacctactctttcttagtagattgtttgactaggcataacaatccagataggaagtccccatatacaagattctataacaatcaatattgctaatttgcatccttgtccatttccactatgaccaatatagTTCATCGGAAGAACTCACAATGCACGACATAGATGCGGTGCAAAGGATTGTGGAATACTTCTTGATGCATGAGCAGCAGCAACCGCACCAACACAAGTCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taatgacactaatatctatcttttgtctttttctattcttttccctcattagtagCATGACTATTTCATCTGAAGAATGCACCATGCTAGACATAGATGTAGTGCAACGAATTGTGGAATACTTCTTGATGCATGAACAACAGCAGATTCAACAG
cactaat putative branch site (score: 2)
tatctatcttttgtct CT-rich tract
taatatctatctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtatgtaacaattctccttttttttcacatgttggaattggcattaatgccaaggtcaaatttaacttcacagccctctaaaccaattttttttttgaaaaaaaagaacccaagagttatgaaaacgactaatgacactaatatctatcttttgtctttttctattcttttccctcattagtagCATGACTATTTCATCTGAAGAATGCACCATGCTAGACATAGATGTAGTGCAACGAATTGTGGAATACTTCTTGATGCATGAACAACAGCAGATTCAACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT