Sequence
atgc intronic sequence ATGC exonic sequence...agaagtcaagaactcattaaggtttcaggtcataaactttctgttatttgttgttgaagatgtgaatcctgttaatttttctggtgggttttgattgcagGTATTGATTGGAAGAATATCCACTGGGGCTCAGAACGATCTGGAAAAGGTGACTAAGATGACTTATGCGCAAGTGGCAGTGTACGGATTCAGCGACAAGA
Basic information
species | Arabidopsis thaliana |
transcript | AT1G07510.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G07510.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os05g38400.2 (Oryza sativa), 3'ss of exon 7
agaagtcaagaactcatta--aggtttcaggtcataaactttctgttat-ttgttgttgaagatgtgaatcctgttaatttttctggtgggttttgattgcagGTATTGATTGGAAGAATATCCACTGGGGCTCAGAACGATCTGGAAAAGGTGACTAAGATGACTTATGCGCAAGTGGCAGTGTACGGATTCAGCGACAAGA
| || | | ||| | | || | | ||| | || ||| || | | | ||| || ||| || | | || || ||||| ||||||||||| || |||||||| |||||||| || ||||| || || || || ||||| |||||||| || || || ||||| |||||||| |||
atttgttcattccatatttccatgattacgctgtcaaatcgttcacaatgttggcagtggaatgatacctaatgtagatGTTT-TGATTGCCTT--GTTACAGGTTTTGATTGGAAGGATCTCCACTGGTGCTCAGAATGACCTGGAGAAAGTTACCAAAATGACCTATGCGCAGGTTGCTGTATACGGTTTCAGCGAAAAGG
upper sequence: AT1G07510.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os01g62500.1 (Oryza sativa), 3'ss of exon 7
agaagtcaagaactcattaaggtttcaggtcataaactttctgttatttgttgttgaagatgtgaatcctgttaat--ttttctggtgggttttgattgcagGTATTGATTGGAAGAATATCCACTGGGGCTCAGAACGATCTGGAAAAGGTGACTAAGATGACTTATGCGCAAGTGGCAGTGTACGGATTCAGCGACAAGA
|| ||| || | | | || | | || | | | ||| || | || | ||| || ||||| |||||||||| || || ||||| || ||||| |||||||| || || ||||||||||||||||| || || ||||| || || |||||||| |||
----------------------------gtacacaacattttctaacttatcagtagagtttattcttaagcaaatgacttaattatgtgattttttttcagGTCTTGATTGGAAAGATCTCGACTGGTGCACAGAATGATCTGGAGAAAGTTACTAAGATGACTTATGCCCAGGTTGCAGTATATGGCTTCAGCGAAAAGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttgttgttgaagatgtgaatcctgttaatttttctggtgggttttgattgcagGTATTGATTGGAAGAATATCCACTGGGGCTCAGAACGATCTGGAAAAGGTGACTAAGATGACTTATGCGCAAGTGGCAGTGTACGGATTCAGCGACAAGA
tgttaattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agaagtcaagaactcattaaggtttcaggtcataaactttctgttatttgttgttgaagatgtgaatcctgttaatttttctggtgggttttgattgcagGTATTGATTGGAAGAATATCCACTGGGGCTCAGAACGATCTGGAAAAGGTGACTAAGATGACTTATGCGCAAGTGGCAGTGTACGGATTCAGCGACAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - caagaac
- - - - - - - - - - - - - - - cataaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgaatcc