Sequence
atgc intronic sequence ATGC exonic sequence...atcgaatcctgatgatggttatgaatgtgaacattttgtactacaattcttcatttacttgttctaaaggttgtgttgtttctttttatctgtttgacagCATTGCCATATATTTCTTTGCAAAAGAAGGTGAAGGCTGCATCCTCACACCAATGAAGGAAAACCATCTTGCACCGGTGACTGTGCATTTCGAGCAAGGT
Basic information
species | Glycine max |
transcript | GLYMA19G36510.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G36510.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv08s0040g01940.t01 (Vitis vinifera), 3'ss of exon 1
-------atcgaatcctgatgatggttatgaatgtgaacattttgtactacaattcttcatttacttgttctaaaggttgtgttgtttctttttatctgtttgacagCATTGCCATATATTTCTTTGCAAAAGAAGGTGAAGGCTGCATCCTCACACCAATGAAGGAAAACCATCTTGCACCGGTGACTGTGCATTTCGAGCAAGGT---
| ||||| |||||| | | ||| | ||| || | | | ||||| | | ||| |||| || ||||||| | ||||| ||||||| |||| |||||||||||||||||| |||| ||| | ||| | |||||||||||||||| | | ||| || ||||| |||||| | || |||
tttgaagtttccatccttttgatggctc--actgttgtctatttttaaaatatattttcat--attcgttttaaaaattt--ttgtttcctacaatctgca-aacagCATCACCATTATTTTCTTTGCAAAAGAAGGCGAAGACTGTAGCCTGTCGCCAATGAAGGAAAACC---TGGAACCAGTCACTGTACATTTCCAACAGGGTCTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attcttcatttacttgttctaaaggttgtgttgtttctttttatctgtttgacagCATTGCCATATATTTCTTTGCAAAAGAAGGTGAAGGCTGCATCCTCACACCAATGAAGGAAAACCATCTTGCACCGGTGACTGTGCATTTCGAGCAAGGT
ttctaaa putative branch site (score: 2)
tttctttttatctgtt putative PPT
ttgtttctttttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atcgaatcctgatgatggttatgaatgtgaacattttgtactacaattcttcatttacttgttctaaaggttgtgttgtttctttttatctgtttgacagCATTGCCATATATTTCTTTGCAAAAGAAGGTGAAGGCTGCATCCTCACACCAATGAAGGAAAACCATCTTGCACCGGTGACTGTGCATTTCGAGCAAGGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - gatgatg
- - - - - - - - - - - gaatgtg
- - - - - - - - - - - - - - - - - - - - - - - - cttcatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttgttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggttgtg