Sequence
atgc intronic sequence ATGC exonic sequencegtatgctccttctattcttcttccatcgatatattctccttttacacatgataattaatgaatgaatcaagcttctatccttttattaatgaatggaagCCTCTCGTTTGCGTTGTCGGCGTCCCAAATCACATGACCTATGCGGATTTCTGCCAGTTCTGTGGTTCCTTCATTCAACACATGCTAGAGATGCGCATAG
Basic information
species | Glycine max |
transcript | GLYMA15G00770.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G00770.1 (Glycine max), 3'ss of exon 1
lower sequence: AT2G26000.2 (Arabidopsis thaliana), 3'ss of exon 2
---gtatgctccttct-----attc-ttcttcca-tcgat---atattctccttttacacatgataatta-atgaatgaatcaagcttctatccttttattaatgaatggaagCCTCTCGTTTGCGTTGTCGGCGTCCCAAATCACATGACCTATGCGGATTTCTGCCAGTTCTGTGGTTCCTTCATTCAACACATGCTAGAGATGCGCATAG
||| | || || |||| ||||||| | ||| || | ||||| || ||||| ||| |||||| | | | ||| | || | |||| ||||||||||||||| | || || || || |||||||| ||||| ||||| ||||||||||| || ||||||||||| ||||| || |
gtaatattcctctcctctatgattcattcttccgcttgattgcatcgatttctttttttcactggaattatatgtttgaatctggaataattttgttttagATTGGAAGGAACCCTCTCGTTTGCGTTCTTGGGGTGCCCAACCACATGACATATGCAGATTTTTGCCAGTTCTGCGGCTCCTTCATTCAGCACATACTGG------------
upper sequence: GLYMA15G00770.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv00s0125g00250.t01 (Vitis vinifera), 3'ss of exon 1
-----gtatgctccttctattcttc----ttccatcgatatattctccttttacacatgataattaatgaatgaatcaagcttctatccttttat---taa--tgaatggaagCCTCTCGTTTGCGTTGTCGGCGTCCCAAATCACATGACCTATGCGGATTTCTGCCAGTTCTGTGGTTCCTTCATTCAACACATGCTAGAGATGCGCATAG
| | || | || || || | | | | || | || || | | || ||| |||| || | | | | || || || | |||| |||| || || || | || || |||||||||||||| ||||| |||||||||||||| |||||||| ||||||||||||||| | |
aacttacaaattatttttgtttttagttatttccttggaagata-tgtttgtaagtttataagttttagaagtaatcttcttttttgcttctgatggttagGTTGGAAGGAAAGCTCTTGTCTGTGTCCTTGGGGTGCCAAATCACATGACATATGCAGATTTCTGCCAGTTTTGTGGTTCATTCATTCAACACATGTTGG------------ atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cacatgataattaatgaatgaatcaagcttctatccttttattaatgaatggaagCCTCTCGTTTGCGTTGTCGGCGTCCCAAATCACATGACCTATGCGGATTTCTGCCAGTTCTGTGGTTCCTTCATTCAACACATGCTAGAGATGCGCATAG
tattaat putative branch site (score: 2)
ataattaatgaatgaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgctccttctattcttcttccatcgatatattctccttttacacatgataattaatgaatgaatcaagcttctatccttttattaatgaatggaagCCTCTCGTTTGCGTTGTCGGCGTCCCAAATCACATGACCTATGCGGATTTCTGCCAGTTCTGTGGTTCCTTCATTCAACACATGCTAGAGATGCGCATAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG