Sequence
atgc intronic sequence ATGC exonic sequencegtgagtgttttggtgttctcaaagtttctgatattcttggcttatctctatacctactaagttgttgttgttcttggtttttgtttagGATACTTCTTTTCTTTACATGGGAAGATTGTTAGAAGGCTTCGGAGTTGGGATTATCTCCTATACG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G19450.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G19450.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA17G36950.1 (Glycine max), 3'ss of exon 4
---------------------------------------------------------------------------------gtgagtgttttg--gtgttctcaaagtttctgatattcttggcttatctctataccta---ctaagttgttgttgtt--cttggtttttgt---ttagGATACTTCTTTTCTTTACATGGGAAGATTGTTAGAAGGCTTCGGAGTTGGGATTATCTCCTATACG
| || ||| |||| |||| | |||| ||| | | | | || || | | ||||| | || |||| | | ||||| ||||||||||||| |||||||||||||| ||||| || || || || || || || || ||
agtaagtttgaatcattttaatattttattttcctctattcatttacccaaaatcacattagttggtattttaatgtggttttagatgatttaatgtgtatccaaacacacacttatttagtaaatatatttggtcatgatcctgagcttgtcttgttgacatgtttttcatctttcaGGATTCTTCTTTTCTTTATATGGGAAGATTGTTGGAAGGGTTTGGTGTAGGAATAATATCTTACAC-
upper sequence: AT1G19450.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA14G08070.1 (Glycine max), 3'ss of exon 4
--------------------------------------------------------------------------------gtgagtgttttggtgttc--tcaaagtttctgatattcttggcttatctctataccta---ctaagttgttgttgtt--cttggtttt---tgtttagGATACTTCTTTTCTTTACATGGGAAGATTGTTAGAAGGCTTCGGAGTTGGGATTATCTCCTATACG
|| | ||| |||| |||| | | |||| ||| | | | | || || | | || || | || | || | || ||||| ||||||||||||| |||||||||||||| ||||| || || || || || || || || |||
gtaagtttgaatgattttagtattttattttcctccattcatttacccaaaattacattaattggtatttcaatgtggttctggataatttattgtttatccaaacatgcaattatttagtaaatatatttggtcgtgattctgagcttgtcttattgacatgttcttcaattttcagGATTCTTCTTTTCTTTATATGGGAAGATTGTTGGAAGGGTTTGGGGTAGGAATAATATCTTACACGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|164220921|gb|ES070967.1|ES070967EST: TTGCTGCAATTCCCAATATTATTGGATGGCTTTCGATATCATTTGCAAAA GATACTTCTTTTCTTTA
genomic: TTGCTGCAATTCCCAATATTATTGGATGGCTTTCGATATCATTTGCAAAAgtgagtgttt ... ttttgtttagGATACTTCTTTTCTTTA
EST:
gi|124945210|gb|EL021241.1|EL021241EST: ATATTATTGGATGGCTTTCGATATCATTTGCAAAA GATACTTCTTTTCTTTACATGGGAAGATTGTTAGAAGGCTTCGGAGTTGGG
genomic: ATATTATTGGATGGCTTTCGATATCATTTGCAAAAgtgagtgttt ... ttttgtttagGATACTTCTTTTCTTTACATGGGAAGATTGTTAGAAGGCTTCGGAGTTGGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcttggcttatctctatacctactaagttgttgttgttcttggtttttgtttagGATACTTCTTTTCTTTACATGGGAAGATTGTTAGAAGGCTTCGGAGTTGGGATTATCTCCTATACG
tttttgttt CT-rich tract
tttttgttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtgttttggtgttctcaaagtttctgatattcttggcttatctctatacctactaagttgttgttgttcttggtttttgtttagGATACTTCTTTTCTTTACATGGGAAGATTGTTAGAAGGCTTCGGAGTTGGGATTATCTCCTATACG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA