Sequence
atgc intronic sequence ATGC exonic sequencegtaatattcctctcctctatgattcattcttccgcttgattgcatcgatttctttttttcactggaattatatgtttgaatctggaataattttgttttagATTGGAAGGAACCCTCTCGTTTGCGTTCTTGGGGTGCCCAACCACATGACATATGCAGATTTTTGCCAGTTCTGCGGCTCCTTCATTCAGCACATACTGG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G26000.2 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G26000.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA15G00770.2 (Glycine max), 3'ss of exon 1
gtaatattcctctcctctatgattcattcttccgcttgattgcatcgatttctttttttcactggaattatatgtttgaatctggaataattttg-ttttagATTGGAAGGAACCCTCTCGTTTGCGTTCTTGGGGTGCCCAACCACATGACATATGCAGATTTTTGCCAGTTCTGCGGCTCCTTCATTCAGCACATACTGG
||| | || || |||| ||||||| | ||| || | ||||| || ||||| ||| |||||| | | ||||| | |||| ||||| |||| ||||||||||||||| | || || || || |||||||| ||||| ||||| ||||||||||| || ||||||||||||||||| || |
---gtatcctccttct-----attc-ttcttcca-tcgat---atattctgcttttacgcatgataatta-atgaatgaatcaagtttcgttttggtgttagGTTGGACGGAAGCCTCTCGTTTGCGTTGTCGGCGTCCCAAATCACATGACCTATGCGGATTTCTGCCAGTTCTGTGGTTCCTTCATTCAGCACATGCTAG
upper sequence: AT2G26000.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA15G00770.1 (Glycine max), 3'ss of exon 1
gtaatattcctctcctctatgattcattcttccgcttgattgcatcgatttctttttttcactggaattatatgtttgaatctggaataattttgttttagATTGGAAGGAACCCTCTCGTTTGCGTTCTTGGGGTGCCCAACCACATGACATATGCAGATTTTTGCCAGTTCTGCGGCTCCTTCATTCAGCACATACTGG------------
||| | || || |||| ||||||| | ||| || | ||||| || ||||| ||| |||||| | | | ||| | || | |||| ||||||||||||||| | || || || || |||||||| ||||| ||||| ||||||||||| || ||||||||||| ||||| || |
---gtatgctccttct-----attc-ttcttcca-tcgat---atattctccttttacacatgataatta-atgaatgaatcaagcttctatccttttattaatgaatggaagCCTCTCGTTTGCGTTGTCGGCGTCCCAAATCACATGACCTATGCGGATTTCTGCCAGTTCTGTGGTTCCTTCATTCAACACATGCTAGAGATGCGCATAG
upper sequence: AT2G26000.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv00s0125g00250.t01 (Vitis vinifera), 3'ss of exon 1
gtaatattcctctcctctatgattcattcttccgcttgattgcatcgatttctttttttcactggaattatatgtttgaatctggaataattttgtt--ttagATTGGAAGGAACCCTCTCGTTTGCGTTCTTGGGGTGCCCAACCACATGACATATGCAGATTTTTGCCAGTTCTGCGGCTCCTTCATTCAGCACATACTGG
|| | | | | || || || | | || || || | || | | ||| | || ||| | || || | |||| |||||||||| |||| || || || ||||||||||| || |||||||||||||||||||| |||||||| || || || |||||||| ||||| |||
aacttacaaattatttttgtttttagttatttccttggaagatatg---tttgtaagtttataagttttagaagtaatcttcttttttgcttctgatggttagGTTGGAAGGAAAGCTCTTGTCTGTGTCCTTGGGGTGCCAAATCACATGACATATGCAGATTTCTGCCAGTTTTGTGGTTCATTCATTCAACACATGTTGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatttctttttttcactggaattatatgtttgaatctggaataattttgttttagATTGGAAGGAACCCTCTCGTTTGCGTTCTTGGGGTGCCCAACCACATGACATATGCAGATTTTTGCCAGTTCTGCGGCTCCTTCATTCAGCACATACTGG
ttttgtttt CT-rich tract
aataattttgtttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatattcctctcctctatgattcattcttccgcttgattgcatcgatttctttttttcactggaattatatgtttgaatctggaataattttgttttagATTGGAAGGAACCCTCTCGTTTGCGTTCTTGGGGTGCCCAACCACATGACATATGCAGATTTTTGCCAGTTCTGCGGCTCCTTCATTCAGCACATACTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT