Sequence
atgc intronic sequence ATGC exonic sequencegtatgcaaattatgccagctttgctagacttaaatttgtactcagacgcacataccatcttaaatccgactttcatgggttcaatagagatttctcattgtttgattgtagggaaatacagcttttatataaaaggaaaattgacattagatattggactgatcaatccatctgtcatatcctgtttttgtcagACCTTGTTCCAGGTGATTTTATCCATGTTATTGGGGATGCACATGTTTACCGCAATCATGTGAGACCCTTGCAGGAACAGCTCCAGAACCAACCAAAACC
Basic information
species | Glycine max |
transcript | GLYMA12G04480.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G04480.1 (Glycine max), 3'ss of exon 9
lower sequence: AT4G34570.1 (Arabidopsis thaliana), 3'ss of exon 10
gtatgcaaattatgccagctttgctagacttaaatttgtactcagacgcacataccatcttaaatccgactttcatgggttcaatagagatttctcattgtttgattgtagggaaatacagcttttatataaaaggaaaattgacattagatattggactgatcaatccatctgtcatatcctgtttttgt----cagACCTTGTTCCAGGTGATTTTATCCATGTTATTGGGGATGCACATGTTTACCGCAATCATGTGAGACCCTTGCAGGAACAGCTCCAGAACCAACCAAAACC
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--------------------------------------------------------------------------------------------------------------gtaaagttctaattcccactataaaaggagcaaatttgtgatttcaaat--atcagtcatcgtctgatagtttgttgacattatgcagATCTTGTTCCTGGTGATTTTATCCATGTGATTGGAGATGCTCATGTTTACAAAAACCATGTCAGGCCTCTGCAAGAGCAACTTGAGAACCCACCAAAACC
upper sequence: GLYMA12G04480.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv03s0038g04500.t01 (Vitis vinifera), 3'ss of exon 10
gtatgcaaattatgccagctttgctagacttaaatttgtactcagacgcacataccatcttaaatccgactttcatgggttcaatagagatttctcattgtttgattgtagggaaatacagcttttatataaaaggaaaattgacattagata--ttggactgatcaatc--catctgtcatatcctgtttttgtcagACCTTGTTCCAGGTGATTTTATCCATGTTATTGGGGATGCACATGTTTACCGCAATCATGTGAGACCCTTGCAGGAACAGCTCCAGAACCAACCAAAACC
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-------------------------------------------------------------------------------------------------ttatcttcttcttcttcttttctattttta-atattcagctcattggtttttgattatttgtattaaagaaatgtctttaattgtattttatcttgtacagACCTTGTTCCTGGTGATTTCATCCATGTTATTGGGGACTCTCATGTTTATCTGACTCATATCAGGCCTCTGCAGGAGCAGCTTCAGAAGCTTCCTAAACC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attgacattagatattggactgatcaatccatctgtcatatcctgtttttgtcagACCTTGTTCCAGGTGATTTTATCCATGTTATTGGGGATGCACATGTTTACCGCAATCATGTGAGACCCTTGCAGGAACAGCTCCAGAACCAACCAAAACC
gactgat putative branch site (score: 3)
tcctgttttt putative PPT
attagatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgcaaattatgccagctttgctagacttaaatttgtactcagacgcacataccatcttaaatccgactttcatgggttcaatagagatttctcattgtttgattgtagggaaatacagcttttatataaaaggaaaattgacattagatattggactgatcaatccatctgtcatatcctgtttttgtcagACCTTGTTCCAGGTGATTTTATCCATGTTATTGGGGATGCACATGTTTACCGCAATCATGTGAGACCCTTGCAGGAACAGCTCCAGAACCAACCAAAACC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC