Sequence
atgc intronic sequence ATGC exonic sequence...ctgacttttattcttctagcaggttttttttttgtctttgtcttttcccatgtttgtagcatcgttttaacttgcgatttcttgtcctgtatgcttgcagTGTAAGCGTGTTTGGGGTCTCAGCAGAATCTATGCAGTGTTCTTATGATCCAAAAGGAAACAGTGTCCCCACTATTCTCTTGCTAATGCAGGACCGTCTA
Basic information
species | Glycine max |
transcript | GLYMA02G17070.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G17070.1 (Glycine max), 3'ss of exon 1
lower sequence: AT4G03100.1 (Arabidopsis thaliana), 3'ss of exon 1
-ctgacttttattcttctagcaggttttttttttgtctttgtcttttcccatgtttgtagcatcgttttaacttgcgatttcttgtcctgtatgcttgcagTGTAAGCGTGTTTGGGGTCTCAGCAGAATCTATGCAGTGTTCTTATGATCCAAAAGGAAACAGTGTCCCCACTATTCTCTTGCTAATGCAGGACCGTCTA
|| | | || | | | ||| ||| || | ||||||| || | || | | | | ||| || | || |||||||| || |||||||| || || || ||||| ||||| |||||||||||| ||||||||||||||||| || ||||| || || |||||||| | ||
gtaatctctcaaaatttcacta--ctgctttagaatctgaaactggatctgaaattgtagcttcttatttaatggtggattc---tctttgattaatgcagTGTGAGTGTGTTTGGTGTATCGGCGGAATCGATGCAATGTTCTTATGATGAGAAAGGAAACAGTGTCCCAACGATTCTATTACTTATGCAGGAGAGACTC
upper sequence: GLYMA02G17070.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv07s0104g01120.t01 (Vitis vinifera), 3'ss of exon 1
ctgacttttattcttctagcaggttttttttttgtctttgtcttttcccatgtttgtagcatcgttttaacttgcgatttct-tgtcc-tgtatgcttgcagTGTAAGCGTGTTTGGGGTCTCAGCAGAATCTATGCAGTGTTCTTATGATCCAAAAGGAAACAGTGTCCCCACTATTCTCTTGCTAATGCAGGACCGTCTA
| || || | | || || || | | ||| | | | || || | | | || | | | | || | ||| |||| ||| |||| ||| |||||||| ||||| || ||||| ||||| |||||||||||| |||||||||| || ||||||||||||||||||||||||||||| | ||
-tagattctactgaattc-cactttattcctatctctcctttggattcaattttctgaattttggttgagataccaacttttgtgtttatgtaattttgtagTGCAAGTGTGTTTGGCGTCTCTGCGGAATCAATGCAATGTTCTTATGATTCAAAAGGAAATAGCGTCCCCACTATTCTCTTGCTAATGCAGGAGAGGTTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcccatgtttgtagcatcgttttaacttgcgatttcttgtcctgtatgcttgcagTGTAAGCGTGTTTGGGGTCTCAGCAGAATCTATGCAGTGTTCTTATGATCCAAAAGGAAACAGTGTCCCCACTATTCTCTTGCTAATGCAGGACCGTCTA
ttttaac putative branch site (score: 2)
ttttaactt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctgacttttattcttctagcaggttttttttttgtctttgtcttttcccatgtttgtagcatcgttttaacttgcgatttcttgtcctgtatgcttgcagTGTAAGCGTGTTTGGGGTCTCAGCAGAATCTATGCAGTGTTCTTATGATCCAAAAGGAAACAGTGTCCCCACTATTCTCTTGCTAATGCAGGACCGTCTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
ctgactt
- - - - - - cttctag
- - - - - - - - - - - - - - - - -gtctttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aacttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtcctg