Sequence
atgc intronic sequence ATGC exonic sequence...tgattaaactggtccttttttatttactaataagtgttaagttctattatctggacttgcactgtatctcagaagatcttgattggtttcttactgacagGTGGGCGGGTCAGGCTTTGTTTGGAACTCTTACACCAGATATAATTGTTCTCACACTCCTATACAGCATAGCTGGA
Basic information
species | Glycine max |
transcript | GLYMA16G19390.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G19390.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G162672_T02 (Zea mays), 3'ss of exon 9
---tgattaaactggtccttttttatttactaataagtgttaagttctattatctggacttgcactgtatctcagaagatcttgattggtttcttactgacagGTGGGCGGGTCAGGCTTTGTTTGGAACTCTTACACCAGATATAATTGTTCTCACACTCCTATACAGCATAGCTGGA
|||| | | | | ||| | || | | | | | || | | | || || ||| | ||| | ||||| || | ||||||||| || ||||| || ||||||||||||||||||||||| ||||| | || | ||||||||||||||
gtatgatctacgttgccgatttctcttca-tgttgcgcaaacaattttggttttgatgctaccatcatatatgcactagacttaaagggttttttttttgcagGTGGGCTGGCCAGGCGTTATTTGGAACTCTTACACCAGATATCATTGTCTTGACTACTTTGTACAGCATAGCTGGG
upper sequence: GLYMA16G19390.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G51820.1 (Arabidopsis thaliana), 3'ss of exon 9
tgattaaactggtccttttttatttactaataagtgttaagttctattatctggacttgcactgtatctcagaagatc-ttgattggtttctt-actgacagGTGGGCGGGTCAGGCTTTGTTTGGAACTCTTACACCAGATATAATTGTTCTCACACTCCTATACAGCATAGCTGGA
| || |||| | || ||| ||| ||| || |||||| | || ||| | ||| ||||| |||||||| || || || |||||||| |||||||| |||||| | ||||||| |||||| | ||||||||||||||
---------------------gtaagatatctcgtgt--atcaataatatatggcgttgttct-catctcattgatttgtttcttgctcacttgactgatagGTGGGCTGGCCAAGCATTGTTTGGCACTCTTACGCCAGATGTTGTTGTTCTAACACTCTTGTACAGCATAGCTGGG
upper sequence: GLYMA16G19390.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv08s0105g00590.t01 (Vitis vinifera), 3'ss of exon 9
--tgattaaactggtccttttttat-ttactaataagtgttaagttctattatctggacttgcactgtatctcagaagatcttgatt-ggtttcttactgacagGTGGGCGGGTCAGGCTTTGTTTGGAACTCTTACACCAGATATAATTGTTCTCACACTCCTATACAGCATAGCTGGA
| | | || ||| || || || |||| || | || || || | | || ||| || | | |||| | ||| ||| |||||||| ||||| ||||||||||| ||||||| || ||||||||||||||||| ||| | ||||||||||||||
attttctcttatagttcttattaatgctaataattagcatgaaatttgtttggttcatcgtgttgagtaactttt----tttggattcaaatgtttattgatagGTGGGCTGGTCAAGCTTTGTTTGGGACTCTTAATCCTGATATAATTGTTCTCACCCTCTTGTACAGCATAGCTGGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attatctggacttgcactgtatctcagaagatcttgattggtttcttactgacagGTGGGCGGGTCAGGCTTTGTTTGGAACTCTTACACCAGATATAATTGTTCTCACACTCCTATACAGCATAGCTGGA
ttcttac putative branch site (score: 2)
tttcttact CT-rich tract
tttctta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgattaaactggtccttttttatttactaataagtgttaagttctattatctggacttgcactgtatctcagaagatcttgattggtttcttactgacagGTGGGCGGGTCAGGCTTTGTTTGGAACTCTTACACCAGATATAATTGTTCTCACACTCCTATACAGCATAGCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - ctggtcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - -cttgcac