Sequence
atgc intronic sequence ATGC exonic sequence...tgtttttatggtcttgtttattccgttggaacatatgctaatacggttaaaagatgtttttataacttttacttctggctttcacattaactctatgcagAATGGGAAGGTTTCCCCCAGTTGTGAGGACAGCAGTGCCAGTAGATGGAAGGTTTGAACACATAGTGCTTTCTTGCAATGCCACATCTGATCATGCCATT
Basic information
species | Glycine max |
transcript | GLYMA10G37820.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G37820.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G085939_T01 (Zea mays), 3'ss of exon 3
tgtttttatggtcttgtttattccgttggaacatatgctaatacggttaaaagatgtttttataacttttacttctggctttcacattaactc----tatgcagAATGGGAAGGTTTCCCCCAGTTGTGAGGACAGCAGTGCCAGTAGATGGAAGGTTTGAACACATAGTGCTTTCTTGCAATGCCACATCTGATCATGCCATT
| | || |||| | || |||| | | | | || | |||| || || | | | | | || ||| ||||| | ||| || || || | ||||| ||||| || ||||| || ||||| |||||||| ||||| |||||||||||| | || |||||||||
--tgatattgaacttgcacagctgtttt--acatttcttggtcagagtactggttgttgctagtgaagtttccgaaaacacactgaattccttgaaacgcacagGTGCGGAAGATATCCACCGGTAGTCAAAACAGCTGTGCCGGTGGATGGTAGATTTGAGCACATAGTTCTTTCCTGCAATGCCACAGCGGACCATGCCATT
upper sequence: GLYMA10G37820.1 (Glycine max), 3'ss of exon 3
lower sequence: AT3G49050.1 (Arabidopsis thaliana), 3'ss of exon 3
tgtttttatggtcttgtttattcc--gttggaacatatgctaatacggttaaaagatgtttttataacttttacttctggctttcacattaactctatgcagAATGGGAAGGTTTCCCCCAGTTGTGAGGACAGCAGTGCCAGTAGATGGAAGGTTTGAACACATAGTGCTTTCTTGCAATGCCACATCTGATCATGCCATT
| ||| | | | || ||| | || | || || | | ||| | | | | | | | ||| | | | |||||| | ||||| | ||| || ||||||| |||||||||||| ||||||||||| || |||||||| || |||||||| || || || || || || |||||
-gccattacattgaagacaaatcatagttttgctctgtgatcat-cgtgtgatagagctaaatctgttgtgaagatgacgttttggtaattggttcttgcagATTAGGAAGATATCCTCCGGTTGTGAAGACAGCAGTGCCGGTAGATGGAAGATTCGAACACATTGTTCTTTCTTGTAACGCAACTTCAGACCACGCCATC
upper sequence: GLYMA10G37820.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv16s0050g00620.t01 (Vitis vinifera), 3'ss of exon 3
tgtttttatggtcttgtt-tattccgttggaacatatgctaatacggttaaaagatgtttttataacttttacttctggctttcacattaactctatgcagAATGGGAAGGTTTCCCCCAGTTGTGAGGACAGCAGTGCCAGTAGATGGAAGGTTTGAACACATAGTGCTTTCTTGCAATGCCACATCTGATCATGCCATT
| ||| | ||| | | | || | | | || | | ||| |||||| | | | | || | |||| |||||||| |||||||| ||||||||||||||||| || |||||||| |||||||| | || || |||||||| |||||||| ||||| ||||| ||
aactattaagtcaaaaagatatgttgatcaattttaaggtggca-ggaaactttagactttgataactgggaaggacatgtattaacatattttgtggcagGATGGGAAGATTTCCCCCGGTTGTGAGGACAGCAGTACCTGTAGATGGGAGGTTTGAGCGTATTGTTCTTTCTTGTAATGCCACTTCTGACCATGCTATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttaaaagatgtttttataacttttacttctggctttcacattaactctatgcagAATGGGAAGGTTTCCCCCAGTTGTGAGGACAGCAGTGCCAGTAGATGGAAGGTTTGAACACATAGTGCTTTCTTGCAATGCCACATCTGATCATGCCATT
cattaac putative branch site (score: 2)
aagatgtttttataac 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtttttatggtcttgtttattccgttggaacatatgctaatacggttaaaagatgtttttataacttttacttctggctttcacattaactctatgcagAATGGGAAGGTTTCCCCCAGTTGTGAGGACAGCAGTGCCAGTAGATGGAAGGTTTGAACACATAGTGCTTTCTTGCAATGCCACATCTGATCATGCCATT
- - - - - - - - - - - - - - - -catatgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctttcac