Sequence
atgc intronic sequence ATGC exonic sequencegtttatgtgctgttctgcttttaatctattttagtgtttaacaattaaaacccattgtgtgagcttttaaaatacctactcattatgtggttgttacagTCACTTGTAGAGTTTTTTGGTACACTGTCAAAAGAATGGGCATTAGAGTGCATGAAAGACTTACTGCTGGCCAATCTTAGGGGCAACCTACAGATCATTG
Basic information
species | Glycine max |
transcript | GLYMA02G42560.1 |
intron # | 18 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G42560.1 (Glycine max), 3'ss of exon 18
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 18
gtttatgtgctgttctgcttttaatctattttagtgtttaacaattaaaacccattgtgtgagcttttaaaatacctactcattatgtggttgttacagTCACTTGTAGAGTTTTTTGGTACACTGTCAAAAGAATGGGCATTAGAGTGCATGAAAGACTTACTGCTGGCCAATCTTAGGGGCAACCTACAGATCATTG
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--------gtttgttatcttaagttatgctttgttgcctgtctattattactggctggggtggt-----------ccatttacaccattattga-acagGCACTTGTTGAGTTCTTTGGCACTCTTTCAAGAGAGTGGGCTTTGGAGTGCATGAAGGACCTTCTGCTGGTCAATCTAAGAGGGAATCTTCAAATTGTTG
upper sequence: GLYMA02G42560.1 (Glycine max), 3'ss of exon 18
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 18
gtttatgtgctgttctgcttttaatctattttagtgtttaacaattaaaacccattgtgtgagcttttaaaatacctactcattatgtggttgttacagTCACTTGTAGAGTTTTTTGGTACACTGTCAAAAGAATGGGCATTAGAGTGCATGAAAGACTTACTGCTGGCCAATCTTAGGGGCAACCTACAGATCATTG
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--------gtttgttatcttaagttatgctttgttgcctgtctattattactggctggggtggt-----------ctatttacaccattattga-acagGCACTTGTTGAGTTCTTTGGCACTCTTTCAAGAGAGTGGGCTTTGGAGTGCATGAAGGACCTTCTGCTGGTCAATCTAAGAGGGAATCTTCAAATTGTTG
upper sequence: GLYMA02G42560.1 (Glycine max), 3'ss of exon 18
lower sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 18
gtttatgtgctgttctgcttttaatctattttagtgtttaacaattaaaacccattgtgtgagcttttaaaatacctactcattatgtggttgt-tacagTCACTTGTAGAGTTTTTTGGTACACTGTCAAAAGAATGGGCATTAGAGTGCATGAAAGACTTACTGCTGGCCAATCTTAGGGGCAACCTACAGATCATTG
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----------------gtttttatacttcaactgtgtttcttggttcac--------taggaggttgtaaacttgctattgaatacgtggttctcttcagGCACTTGTAGAGTTCTTTGGTACGCTTTCACGAGAATGGGCTTTGGAGTGCATGAAGGACCTTCTTCTGGTCAATCTAAGAGGCAACCTTCAGATAATTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaaaacccattgtgtgagcttttaaaatacctactcattatgtggttgttacagTCACTTGTAGAGTTTTTTGGTACACTGTCAAAAGAATGGGCATTAGAGTGCATGAAAGACTTACTGCTGGCCAATCTTAGGGGCAACCTACAGATCATTG
ttttaaaataccta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttatgtgctgttctgcttttaatctattttagtgtttaacaattaaaacccattgtgtgagcttttaaaatacctactcattatgtggttgttacagTCACTTGTAGAGTTTTTTGGTACACTGTCAAAAGAATGGGCATTAGAGTGCATGAAAGACTTACTGCTGGCCAATCTTAGGGGCAACCTACAGATCATTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA