Sequence
atgc intronic sequence ATGC exonic sequencegttaagtctctttttcttctttttgaaaaatcctatattttggaatttggataagtacaatgactctgattgtggagttgacagaacttgtgtatatctgtgaatttgcagCTGATATTGTGTTTGATTACCGTCAGAAGGCGACGAGGTCCTTTGAACATCTTCAAGGAGATTATTACATTGCTCCATCGTTTCTG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G73110.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G73110.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: LOC_Os04g56320.1 (Oryza sativa), 3'ss of exon 1
---------------------------gttaagtctctttttcttctttt--tgaaaaatcctatatt--ttggaatttggataag--------tacaatgactctgattgtgga------------gttgacagaact---tgtgta--tatctgtgaa-----tttgcagCTGATATTGTGTTTGATTACCGTCAGAAGGCGACGAGGTCCTTTGAACATCTTCAAGGAGATTATTACATTGCTCCATCGTTTCTG
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gtacgcgctccagcacttggatgccccgttcgatccaaataccatcttataataaaatgtcctgaattgtttggttcctgaacatgagattctgtatactaacttcagcagtagacgatctttccttggttacagctctatatatatagttacttgtgaaatgtgtttgcagCGGATATTGTGTTCGATTACCGGCAGAAAGCGACCAGGACGTTTGAGTACCTGCAAGGAGATTATTACATCGCACCCCTCTTCCTT
upper sequence: AT1G73110.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA13G44940.1 (Glycine max), 3'ss of exon 1
gttaagtctctttttcttctttttgaaaaatcctatattttggaatttggataagtacaatgactctgattgtggagttgacagaacttgtgtatatctgtgaatttgcagCTGATATTGTGTTTGATTACCGTCAGAAGGCGACGAGGTCCTTTGAACATCTTCAAGGAGATTATTACATTGCTCCATCGTTTCTG
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-gtaattctaatgccattccttt-----attctcacgctccacatttttttccatcaataacaatcaaacatcacctcccccttttgttttttgt-tttgtg---ttgcagCGGACATTGTCTTTGATTATCGTCAAAAAGTGACGAGGTCCTTTCAATACCTTCAGGGCGATTATTACATCGCTCCTCTCTTCATG
upper sequence: AT1G73110.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv09s0018g01270.t01 (Vitis vinifera), 3'ss of exon 2
gttaagtctctttttcttctttttgaaaaatcctatattttggaatttggataagtacaatgactctgattgtggagttgacagaacttgtgtatatctgtgaatttgcagCTGATATTGTGTTTGATTACCGTCAGAAGGCGACGAGGTCCTTTGAACATCTTCAAGGAGATTATTACATTGCTCCATCGTTTCTG----
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-tagggtgtctgaatctctgataaccatggtttctcactttgaattt--gctgaatttgcttagcttctttgaggatttaa----attcttttttccttg----tttgcagCGGATATTGTGTTTGATTACCGACAAAAAGTGACTCGCTCATTTGAGTATCTTCAAGGGGATTACTACATCGCTCCTGTCTTCATGGCAAMapped 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|125223940|gb|EL238025.1|EL238025EST: TTGGAGACTTCCTTGGAAAAGATT CTGATATTGTGTTTGATTACCGTCAGAAGGCGACGAGGTCCTTTGAACATC
genomic: TTGGAGACTTCCTTGGAAAAGATTgttaagtctc ... gaatttgcagCTGATATTGTGTTTGATTACCGTCAGAAGGCGACGAGGTCCTTTGAACATC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acaatgactctgattgtggagttgacagaacttgtgtatatctgtgaatttgcagCTGATATTGTGTTTGATTACCGTCAGAAGGCGACGAGGTCCTTTGAACATCTTCAAGGAGATTATTACATTGCTCCATCGTTTCTG
agttgac putative branch site (score: 4)
tgtatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttaagtctctttttcttctttttgaaaaatcctatattttggaatttggataagtacaatgactctgattgtggagttgacagaacttgtgtatatctgtgaatttgcagCTGATATTGTGTTTGATTACCGTCAGAAGGCGACGAGGTCCTTTGAACATCTTCAAGGAGATTATTACATTGCTCCATCGTTTCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT