Sequence
atgc intronic sequence ATGC exonic sequence...taatgaattttttttattttgaattccataagcattggcatttgcctaatgttgacttgtcaatagtattattaaactaatcttcttattctgtttgcagTTGTTCATCATTATCTCCTGCACCATCGCAGTAGGGACAAACCTCAGCCAGTTCATCTGCATTGGCAGGTTCACAGCTGTATCTTTCCAAGTCCTTGGAC
Basic information
species | Glycine max |
transcript | GLYMA08G15250.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G15250.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G39390.1 (Arabidopsis thaliana), 3'ss of exon 5
------------------------------------------------------------------------------------taatgaattttttttattttgaattc--cataagcattggcatttgcctaatgttg-acttgtcaatagtattattaaactaatcttcttattctgtttgcagTTGTTCATCATTATCTCCTGCACCATCGCAGTAGGGACAAACCTCAGCCAGTTCATCTGCATTGGCAGGTTCACAGCTGTATCTTTCCAAGTCCTTGGAC
|| | | || || | | | | ||| | || || ||||| | ||||| | || | | |||| ||| | | |||||| ||| | || |||| |||| ||||| || ||||| || |||||||| |||||||| ||||| || ||||| || || ||||||||||| ||||| |
gtaaagtttcttctccgtttctttacaaagtctcctacgattcaaaacagagcaatgagtatttggaacatagtgtagtattagtagtcataccaattcgcatttattccatctcaagaactgattgttatactctgttggatttgtctttcctaagctctatctaacaca---attttttgggcagTTCTTCTTAATACTCTCGTGCAGTATCGCGGTTGGGACCAATCTCAGCCAATTCATCTGTATTGGAAGATTCACGGCGGTGTCTTTCCAAGTACTTGGTC
upper sequence: GLYMA08G15250.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv07s0031g01860.t01 (Vitis vinifera), 3'ss of exon 5
taatgaattttttttattttgaattccataagcattggcatttgcctaatgttgacttgtc-aatagtattattaa--actaatcttcttattctgtttgcagTTGTTCATCATTATCTCCTGCACCATCGCAGTAGGGACAAACCTCAGCCAGTTCATCTGCATTGGCAGGTTCACAGCTGTATCTTTCCAAGTCCTTGGAC
| ||| |||| | | | | | || |||| || | | | | | | | | | | | | | | | | | ||||| ||||||||||| | |||||||| || || ||||| || ||||||||||| |||||||| ||||| || ||||| || || || |||||||| |||| |
---tatattcatttttctcatattcatgcatgtttttgcatcctgctcgtatcgtatcatttaggaatgctgctgatgatttgccccactttgttccctgcagATGTTCATCATTCTGTCCTGCACAATTGCGGTAGGAACCAACCTCAGCCAATTCATCTGTATTGGAAGATTCACTGCAGTGTCCTTCCAAGTGATTGGGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctaatgttgacttgtcaatagtattattaaactaatcttcttattctgtttgcagTTGTTCATCATTATCTCCTGCACCATCGCAGTAGGGACAAACCTCAGCCAGTTCATCTGCATTGGCAGGTTCACAGCTGTATCTTTCCAAGTCCTTGGAC
aactaat putative branch site (score: 2)
tcttcttattctgttt CT-rich tract
aatagtattattaaac 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taatgaattttttttattttgaattccataagcattggcatttgcctaatgttgacttgtcaatagtattattaaactaatcttcttattctgtttgcagTTGTTCATCATTATCTCCTGCACCATCGCAGTAGGGACAAACCTCAGCCAGTTCATCTGCATTGGCAGGTTCACAGCTGTATCTTTCCAAGTCCTTGGAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - -tgaattc
- - - - - - - - - - - - - - - - - - -gcatttg
- - - - - - - - - - - - - - - - - - - - - - - - -tgttgac