Sequence
atgc intronic sequence ATGC exonic sequencegttttctcttgtctgctacggtttatgggaagaatgtgggtgctaacatcgatcgcgctttgattcgcagATGGACAGAGCTTCCATTTTGGGCGACGCCATCGATTACTTGAAGGAGCTGCTCCATAAGATCAACGATCTACACAACGAGCTGGAAGCGGCGCAATCCG
Basic information
species | Selaginella moellendorffii |
transcript | EFJ37663 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ37663 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: LOC_Os11g32100.1 (Oryza sativa), 3'ss of exon 1
----------------------------gttttctcttgtctgctacggtttatgggaagaatgtg-ggtgctaacatcgatcgcgctt-tgattcgcagATGGACAGAGCTTCCATTTTGGGCGACGCCATCGATTACTTGAAGGAGCTGCTCCATAAGATCAACGATCTACACAACGAGCTGGAAGCGGCGCAATCCG
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ggtactactaatatcattcatatgaaagcaattctatagtgatgcattatacttgtgatgatttagcaataagatgattatatgtgtttgcaattggtagATGGACAGGGCTTCCATTCTCGGCGACGCGATTGAGTACCTGAAGGAGCTGCTGCAGAAGATCAATGATCTTCAGAATGAGCTCGAGTCGTCCCCCGCGA
upper sequence: EFJ37663 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: GRMZM2G033356_T01 (Zea mays), 3'ss of exon 1
-------------------------------gttttctcttgt-ctgctacggtttatgggaagaatgtgggtgctaacatcgatcgcgctt-tgattcgcagATGGACAGAGCTTCCATTTTGGGCGACGCCATCGATTACTTGAAGGAGCTGCTCCATAAGATCAACGATCTACACAACGAGCTGGAAGCGGCGCAATCCG
| | || || || | || | | | | | | || | | | | | | | | | |||||||||| || |||||| | |||||||| ||||| ||| ||||||||||||| || |||||||||||||| || || || ||||| || | | |||
tcttattggtacatacttcattatattgataggtatcactagtgttacttcctccttttgaccgggcaacga-actga--ttgtttctgttggcaactggtagATGGACAGGGCCTCCATTCTCGGCGACGCAATCGAGTACCTGAAGGAGCTGCTGCAGAAGATCAACGATCTTCAGAATGATCTGGAGTCGTCCCCTTCCA
upper sequence: EFJ37663 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: GRMZM2G172297_T01 (Zea mays), 3'ss of exon 1
--------------------------gttttctct-----tgtctgctacggtttatgggaagaatgtgggtgctaacatcgatcgcgctttgattcgcagATGGACAGAGCTTCCATTTTGGGCGACGCCATCGATTACTTGAAGGAGCTGCTCCATAAGATCAACGATCTACACAACGAGCTGGAAGCGGCGCAATCCG
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gttcccatagaattgtagatgcccttgttgtctctgactgcatccttcactgcattcatagatatcactagtgtaactttctctggctgtttc-tgtaaagATGGACAGGGCCTCCATTCTCGGCGACGCGATCGAGTACCTGAAGGAGCTGCTGCGGAAGATCGAGGAGCTCCAGAACGAGGTGGAGTCATCAGCATCCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctacggtttatgggaagaatgtgggtgctaacatcgatcgcgctttgattcgcagATGGACAGAGCTTCCATTTTGGGCGACGCCATCGATTACTTGAAGGAGCTGCTCCATAAGATCAACGATCTACACAACGAGCTGGAAGCGGCGCAATCCG
tttgatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttttctcttgtctgctacggtttatgggaagaatgtgggtgctaacatcgatcgcgctttgattcgcagATGGACAGAGCTTCCATTTTGGGCGACGCCATCGATTACTTGAAGGAGCTGCTCCATAAGATCAACGATCTACACAACGAGCTGGAAGCGGCGCAATCCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG